Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001563.1 Hibiscus syriacus cultivar Beakdansim tig00003096_pilon, whole genome shotgun sequence
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: 849978
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:482934 original size:26 final size:26
Alignment explanation
Indices: 482905--482960 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
482895 TATTGAATGG
*
482905 TAAACAA-AAAGGAAAAAAATGAATAA
1 TAAACAATAAAAGAAAAAAAT-AATAA
* * *
482931 TAAATAATAAAATAAATAAATAATAA
1 TAAACAATAAAAGAAAAAAATAATAA
482957 TAAA
1 TAAA
482961 TAATGTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (26 bp):
TAAACAATAAAAGAAAAAAATAATAA
Found at i:482948 original size:19 final size:19
Alignment explanation
Indices: 482920--482960 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
482910 AAAAAGGAAA
*
482920 AAAATGAAT-AATAAATAAT
1 AAAATAAATAAAT-AATAAT
482939 AAAATAAATAAATAATAAT
1 AAAATAAATAAATAATAAT
482958 AAA
1 AAA
482961 TAATGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAATAAATAATAAT
Found at i:483472 original size:33 final size:33
Alignment explanation
Indices: 483435--483512 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
483425 AGTCCTACTT
* *
483435 GGACTCAAATGC-TTCGGTTTTAGTGTTTTAATA
1 GGACTCAAATACATT-GGTTTTAGTGTTTCAATA
483468 GGACTCAAATACATTGGTTTTAGTGTTTCAATA
1 GGACTCAAATACATTGGTTTTAGTGTTTCAATA
*
483501 AGACTCAAATAC
1 GGACTCAAATAC
483513 GTTGATTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 39 0.95
34 2 0.05
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (33 bp):
GGACTCAAATACATTGGTTTTAGTGTTTCAATA
Found at i:483584 original size:3 final size:3
Alignment explanation
Indices: 483570--483619 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
483560 GGCCTGCAAA
483570 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAAT AAAT AA- ATAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT A-AT AAT AAT
483615 AAT AA
1 AAT AA
483620 AATGTTTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 5 0.12
3 29 0.69
4 8 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:483604 original size:20 final size:19
Alignment explanation
Indices: 483570--483620 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
483560 GGCCTGCAAA
483570 AATAATAA-AAT-AATAAT
1 AATAATAATAATAAATAAT
483587 AATAATAATAAATAAATAA-
1 AATAATAAT-AATAAATAAT
483606 ATATAAT-ATAATAAA
1 A-ATAATAATAATAAA
483621 ATGTTTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.27
18 6 0.20
19 6 0.20
20 10 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAATAATAATAAATAAT
Found at i:483622 original size:23 final size:23
Alignment explanation
Indices: 483577--483620 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
483567 AAAAATAATA
483577 AAATAATAATAATAATAATAAAT
1 AAATAATAATAATAATAATAAAT
483600 AAATAA-ATATAAT-ATAATAAA
1 AAATAATA-ATAATAATAATAAA
483621 ATGTTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATAATAATAATAATAATAAAT
Found at i:484671 original size:110 final size:108
Alignment explanation
Indices: 484471--484728 Score: 394
Period size: 110 Copynumber: 2.4 Consensus size: 108
484461 GTATTGCTCC
* ** * *
484471 GAGTCCAATATCCTCCGCAGTGAAGTTGAAATTGGCTCTG--GAACTGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAGAAATGGAAAATTGTTTGTTGAC
484534 AATCAGTCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
66 AATCAGTCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
* *
484577 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGTTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-GAAATGGAAAA-TTGTTTGTTG
*
484642 ACAATCAGTTGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
64 ACAATCAGTCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
* *
484687 GGGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
484729 ATTGGGAAGT
Statistics
Matches: 137, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
106 36 0.26
109 8 0.06
110 93 0.68
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (108 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAGAAATGGAAAATTGTTTGTTGAC
AATCAGTCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
Found at i:486919 original size:18 final size:20
Alignment explanation
Indices: 486892--486929 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
486882 AGAGACAAAA
486892 ATATCCTAAC-AG-CTTCTG
1 ATATCCTAACTAGTCTTCTG
*
486910 ATATCTTAACTAGTCTTCTG
1 ATATCCTAACTAGTCTTCTG
486930 CCTTTGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (20 bp):
ATATCCTAACTAGTCTTCTG
Found at i:508529 original size:3 final size:3
Alignment explanation
Indices: 508509--508589 Score: 105
Period size: 3 Copynumber: 27.7 Consensus size: 3
508499 ATAACTTAAT
* *
508509 TAA TAA TAG TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
508555 TAA -AA TAA -AA TAA TAT TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
508590 TTATTATTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
2 6 0.09
3 59 0.87
4 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:508566 original size:28 final size:28
Alignment explanation
Indices: 508509--508589 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
508499 ATAACTTAAT
*
508509 TAATAATAGTAAT-AAATAATAATAATAA
1 TAATAATAATAATAAAATAATAATAA-AA
*
508537 TAATAATAATAATAATAGTAA-AATAAAA
1 TAATAATAATAATAA-AATAATAATAAAA
* *
508565 TAATATTAATAATAATATAATAATA
1 TAATAATAATAATAAAATAATAATA
508590 TTATTATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.07
28 32 0.71
29 6 0.13
30 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
TAATAATAATAATAAAATAATAATAAAA
Found at i:509266 original size:123 final size:122
Alignment explanation
Indices: 508947--509506 Score: 754
Period size: 121 Copynumber: 4.7 Consensus size: 122
508937 TAGAATCAAT
* *
508947 CAAAAGGTTGAACAAGCTCTTCTCATGATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
* * * * *
509012 TATGAACTTTCTCTGAAAAAATTGATGCTAATCTATCTCTTTTTATGATAGAGTCATG
66 TATGAACTTTCTCTGGAAAAGTTAATGCTGATCTATCTC-CTTTATGATAGAGTCATG
509070 C-AAAGGTTGAACAAG--CTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
* * *
509132 TATGAACTTTCTCTGGAAAAGTTAATGTTGATCTATCTCCTTCTGTGATATAGTCATG
66 TATGAACTTTCTCTGGAAAAGTTAATGCTGATCTATCTCCTT-TATGATAGAGTCATG
*
509190 CAAAAGGTTGAACAAGCTCTTCTCATTATAAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
* ** *
509255 TATGAACTTTCTCTGGAAAAGTTGATATTGAT-TATCTCCTTTATGGTAGAGTCATG
66 TATGAACTTTCTCTGGAAAAGTTAATGCTGATCTATCTCCTTTATGATAGAGTCATG
*
509311 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
* * *** * *
509376 TATGAACTTTCTCT-G----G-CAATGCTGATCCATC-GAGTGATGAATTGA---A-G
66 TATGAACTTTCTCTGGAAAAGTTAATGCTGATCTATCTCCTTTATG-ATAGAGTCATG
** *
509423 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
509488 TATGAACTTTCTCTGGAAA
66 TATGAACTTTCTCTGGAAA
509507 TGCTGATCCA
Statistics
Matches: 394, Mismatches: 33, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
112 76 0.19
113 2 0.01
115 10 0.03
116 7 0.02
119 2 0.01
120 94 0.24
121 103 0.26
122 23 0.06
123 77 0.20
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (122 bp):
CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGTTAATGCTGATCTATCTCCTTTATGATAGAGTCATG
Found at i:509509 original size:112 final size:112
Alignment explanation
Indices: 509310--509526 Score: 380
Period size: 112 Copynumber: 1.9 Consensus size: 112
509300 GTAGAGTCAT
*
509310 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCA
* *
509375 TTATGAACTTTCTCTGGCAATGCTGATCCATCGAGTGATGAATTGAA
66 TTATGAACTTTCTCTGGAAATGCTGATCCATCAAGTGATGAATTGAA
* * *
509422 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCA
509487 TTATGAACTTTCTCTGGAAATGCTGATCCATCAAGTGATG
66 TTATGAACTTTCTCTGGAAATGCTGATCCATCAAGTGATG
509527 GATTTGAATC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 99 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAATGCTGATCCATCAAGTGATGAATTGAA
Found at i:510647 original size:18 final size:19
Alignment explanation
Indices: 510619--510697 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 19
510609 TTTACAAAAT
510619 AAAAGAATAAATTGAATTTC
1 AAAA-AATAAATTGAATTTC
* *
510639 -AAAAATAAATTAAATCTC
1 AAAAAATAAATTGAATTTC
*
510657 AAAAATATAAATTGAATTTA
1 AAAAA-ATAAATTGAATTTC
510677 AAGAAAATAAAATTAGAATTT
1 AA-AAAAT-AAATT-GAATTT
510698 ATTAATAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 13 0.27
19 7 0.14
20 15 0.31
21 8 0.16
22 6 0.12
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.30
Consensus pattern (19 bp):
AAAAAATAAATTGAATTTC
Found at i:510669 original size:20 final size:18
Alignment explanation
Indices: 510624--510663 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
510614 AAAATAAAAG
* *
510624 AATAAATTGAATTTCAAA
1 AATAAATTAAATCTCAAA
510642 AATAAATTAAATCTCAAA
1 AATAAATTAAATCTCAAA
510660 AATA
1 AATA
510664 TAAATTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (18 bp):
AATAAATTAAATCTCAAA
Found at i:520236 original size:24 final size:22
Alignment explanation
Indices: 520194--520248 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 22
520184 TTAAAAATTA
*
520194 AAAATAA-AATAAAACATTAAT
1 AAAATAATAATAAAACATTAAG
* *
520215 AAAATAATATATATAAATATTAGG
1 AAAATAATA-ATA-AAACATTAAG
520239 AAAATAATAA
1 AAAATAATAA
520249 GTATATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 7 0.25
22 1 0.04
23 4 0.14
24 16 0.57
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAATAATAATAAAACATTAAG
Found at i:520270 original size:28 final size:27
Alignment explanation
Indices: 520217--520273 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
520207 ACATTAATAA
* *
520217 AATAATATATATAAATATTAGGAAAAT
1 AATAATATATATAAAAATTAGAAAAAT
**
520244 AATAAGTATATATAAAAATTTTAAAAAT
1 AATAA-TATATATAAAAATTAGAAAAAT
520272 AA
1 AA
520274 AGATTTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (27 bp):
AATAATATATATAAAAATTAGAAAAAT
Found at i:522436 original size:3 final size:3
Alignment explanation
Indices: 522416--522492 Score: 99
Period size: 3 Copynumber: 26.7 Consensus size: 3
522406 ATAACTTAAT
* *
522416 TAA TAA TAG TAA TAAA TAA TAA TAA TAA TAA TAA T-A TAA TAG TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
522461 -AA TAA -AA TAA TAA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
522493 TTATTATTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
2 8 0.12
3 54 0.83
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:522460 original size:33 final size:33
Alignment explanation
Indices: 522418--522489 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
522408 AACTTAATTA
*
522418 ATAATAGTAATAA-ATAATAATAATAATAATAAT
1 ATAATAGTAA-AATAAAATAATAATAATAATAAT
522451 ATAATAGTAAAATAAAATAATAATAATAATAAT
1 ATAATAGTAAAATAAAATAATAATAATAATAAT
522484 ATAATA
1 ATAATA
522490 ATATTATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (33 bp):
ATAATAGTAAAATAAAATAATAATAATAATAAT
Found at i:527801 original size:3 final size:3
Alignment explanation
Indices: 527788--527825 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
527778 AAAAAATATA
*
527788 TAT TA- TAT TAT TAT TAT TAT AAT TACT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA
527826 ATTTATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:528814 original size:12 final size:12
Alignment explanation
Indices: 528794--528828 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
528784 CTTAATTTTA
528794 TTTATTTTTATTT
1 TTTA-TTTTATTT
528807 TTTATTTTATTT
1 TTTATTTTATTT
528819 TTTATTTTAT
1 TTTATTTTAT
528829 ATTTACATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:532905 original size:105 final size:106
Alignment explanation
Indices: 532781--533452 Score: 1046
Period size: 105 Copynumber: 6.4 Consensus size: 106
532771 TTCAGATTCT
* * * * *
532781 ATTTCAACTTCGCAACGAAGAAAATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
532846 ACCGCTGGTTGTCAACAAA-AACTTCTCAATTTCAAAGCCA
66 ACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGCCA
*
532886 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
532951 A-CGCTGGTTGTCAATAAATAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGCCA
*
532991 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
533056 ACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGCCA
*
533097 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
533162 ACCGCTGGTTGTCAAC-AACAACTTCCCAAATTCAGAGCCA
66 ACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGCCA
*
533202 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACTCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
533267 ACCGCTGGTTGTCAAC-AACAACTTCCCAATTTTAGAGCCA
66 ACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGCCA
* * * * *
533307 ATTTCAACTTCACAACGAAGAATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
533372 ACGGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCA
66 ACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGCCA
* * *
533413 ATTTTAACTTTACAGCGAAGGATATTGGACTCGAGACAAC
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
533453 ACAACTTTCA
Statistics
Matches: 533, Mismatches: 31, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
104 16 0.03
105 343 0.64
106 174 0.33
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGCCA
Found at i:533148 original size:211 final size:209
Alignment explanation
Indices: 532781--533452 Score: 1065
Period size: 211 Copynumber: 3.2 Consensus size: 209
532771 TTCAGATTCT
* * * * *
532781 ATTTCAACTTCGCAACGAAGAAAATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
532846 ACCGCTGGTTGTCAACAAAAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGGTTGTCAACAAAAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
532911 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGCTGGTTGTCAATAAATAACTTC
131 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGCTGGTTGTCAA-AAACAACTTC
*
532976 TCAATTTCAGAGCCA
195 CCAATTTCAGAGCCA
*
532991 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
533056 ACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
66 ACCGCTGGTTGTCAACAAA-AACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* *
533121 TTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTT
130 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAAAAACAACTT
*
533186 CCCAAATTCAGAGCCA
194 CCCAATTTCAGAGCCA
*
533202 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACTCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
533267 ACCGCTGGTTGTCAACAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAACGAAGAATAT
66 ACCGCTGGTTGTCAACAAAAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
* * * *
533332 TGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTT
131 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC-GCTGGTTGTCAA-AAACAACTT
*
533397 CCCAATTTCGGAGCCA
194 CCCAATTTCAGAGCCA
* * *
533413 ATTTTAACTTTACAGCGAAGGATATTGGACTCGAGACAAC
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
533453 ACAACTTTCA
Statistics
Matches: 427, Mismatches: 31, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
209 1 0.00
210 169 0.40
211 244 0.57
212 13 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (209 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAAAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGCTGGTTGTCAAAAACAACTTCC
CAATTTCAGAGCCA
Found at i:533357 original size:316 final size:316
Alignment explanation
Indices: 532745--533452 Score: 1058
Period size: 316 Copynumber: 2.2 Consensus size: 316
532735 AAAAGTTGTC
* ** * * * * *
532745 TGTCAACAAACAACTTTCCAATTTCATTCAGATTCTATTTCAACTTCGCAACGAAGAAAATTGGA
1 TGTCAACAAACAACTTCCCAA--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
532810 CTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAACTTCTCAA
62 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAACTTCCCAA
*
532875 TTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
127 ATTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
532940 ACGACGAAGGGACGCTGGTTGTCAATAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
192 ACGACGAAGGGACGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * * * *
533005 GCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
257 ACGAAGAATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGT
* *
533065 TGTCAACAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
533130 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAAATTC
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAACTTCCCAAATTC
* * *
533195 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACTCAAGTTCAACTTCACGA
131 AAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
533260 CGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAACG
196 CGAAGGGA-CGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
* *
533324 AAGAATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGT
260 AAGAATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGT
* * * * *
533381 TGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTTAACTTTACAGCGAAGGATATTGGACTCG
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
533446 AGACAAC
66 AGACAAC
533453 ACAACTTTCA
Statistics
Matches: 350, Mismatches: 37, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
316 318 0.91
317 13 0.04
318 1 0.00
320 18 0.05
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (316 bp):
TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAACTTCCCAAATTC
AAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGA
AGAATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGT
Found at i:534353 original size:3 final size:3
Alignment explanation
Indices: 534340--534389 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
534330 AAAAAATATA
* *
534340 TAT TA- TAT TAT TAT TAT TTT TAT TACT TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
534385 TAT TA
1 TAT TA
534390 ATTTATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:535371 original size:6 final size:6
Alignment explanation
Indices: 535360--535397 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
535350 ATTAATTTTA
535360 TTTATT TTTATT TTTA-T TTTATTT TTTATT TTATATT T
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT TT-TATT T
535398 ACATATTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.17
6 14 0.48
7 10 0.34
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:535382 original size:17 final size:18
Alignment explanation
Indices: 535355--535397 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
535345 ATATTATTAA
535355 TTTTA-TTTA-TTTTTAT
1 TTTTATTTTATTTTTTAT
535371 TTTTATTTTATTTTTTAT
1 TTTTATTTTATTTTTTAT
535389 TTTATATTT
1 TTT-TATTT
535398 ACATATTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 10 0.42
19 5 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTATTTTATTTTTTAT
Found at i:537784 original size:3 final size:3
Alignment explanation
Indices: 537776--537815 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
537766 GTTACTTAGT
537776 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
537816 GCTCTCCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:542793 original size:21 final size:21
Alignment explanation
Indices: 542763--542803 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
542753 TAAGTCTTCA
* *
542763 TTCTTCTTCTTCTCATCCTTT
1 TTCTTATTCTCCTCATCCTTT
*
542784 TTCTTATTCTCCTCCTCCTT
1 TTCTTATTCTCCTCATCCTT
542804 CTCCTCCTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.37, G:0.00, T:0.59
Consensus pattern (21 bp):
TTCTTATTCTCCTCATCCTTT
Found at i:543986 original size:57 final size:58
Alignment explanation
Indices: 543920--544054 Score: 168
Period size: 57 Copynumber: 2.3 Consensus size: 58
543910 AGAAGCACTA
* * *
543920 AATAGTTAAGGTAGAAAATGACGACAATTTTATAAAATTGA-A-AAAATAGGA-TTCCTT
1 AATAATTAAGGTAGAAAATG-CGA-AATTTTATAAAATTGAGATAAAATAGAAGGTCCTT
* **
543977 AATAATTAAGGTAGAAAATGTGATTTTTTATAAAATTGAGATAAAATAGAAGGTCCTT
1 AATAATTAAGGTAGAAAATGCGAAATTTTATAAAATTGAGATAAAATAGAAGGTCCTT
*
544035 AATAATTAAGATAGAAAATG
1 AATAATTAAGGTAGAAAATG
544055 GAATCTTAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
55 14 0.21
56 3 0.04
57 27 0.40
58 24 0.35
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.31
Consensus pattern (58 bp):
AATAATTAAGGTAGAAAATGCGAAATTTTATAAAATTGAGATAAAATAGAAGGTCCTT
Found at i:544052 original size:58 final size:55
Alignment explanation
Indices: 543947--544054 Score: 162
Period size: 58 Copynumber: 1.9 Consensus size: 55
543937 ATGACGACAA
* * *
543947 TTTTATAAAATTGAAAAAATAGGATTCCTTAATAATTAAGGTAGAAAATGTGATT
1 TTTTATAAAATTGAAAAAATAGAAGTCCTTAATAATTAAGATAGAAAATGTGATT
544002 TTTTATAAAATTGAGATAAAATAGAAGGTCCTTAATAATTAAGATAGAAAATG
1 TTTTATAAAATTGA-A-AAAATAGAA-GTCCTTAATAATTAAGATAGAAAATG
544055 GAATCTTAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
55 14 0.30
56 1 0.02
57 8 0.17
58 24 0.51
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (55 bp):
TTTTATAAAATTGAAAAAATAGAAGTCCTTAATAATTAAGATAGAAAATGTGATT
Found at i:545146 original size:2 final size:2
Alignment explanation
Indices: 545135--545182 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
545125 TTGAAATAAT
*
545135 TA TA -A TA TA TA TT TA TA TA TA TA TA TA TA TA T- TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
545174 -A TA TA -A TA T
1 TA TA TA TA TA T
545183 GTATGATGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
1 5 0.13
2 34 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:551791 original size:64 final size:63
Alignment explanation
Indices: 551723--551844 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 63
551713 TGGAACACTT
*
551723 AGTGCATCGGTGCA-CCAAGTGTGCATCGATGCATAAAAAGCATTCGATGTTTTGAAAAAGCCTG
1 AGTGCATCGATGCATCCAA-TGTGCATCGATGCATAAAAAGCATTCGATG-TTTGAAAAAGCCTG
*** *
551787 AGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAAA
1 AGTGCATCGATGCATCCAATGTGCATCGATGCATAAAAAGCATTCGATGTTTGAAAAA
551845 TTAATTGGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 9 0.17
64 42 0.81
65 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (63 bp):
AGTGCATCGATGCATCCAATGTGCATCGATGCATAAAAAGCATTCGATGTTTGAAAAAGCCTG
Found at i:551856 original size:64 final size:64
Alignment explanation
Indices: 551742--551884 Score: 184
Period size: 64 Copynumber: 2.2 Consensus size: 64
551732 GTGCACCAAG
**
551742 TGTGCATCGATGCATAAAAAGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATGG-T
1 TGTGCATCGATGCATAAAAAGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATGGAT
* *
551805 ATGTGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAATTAATTG-GTGCATCGATGCATGG
1 -TGTGCATCGATGCATAAAAAGCATTCGATGTTTTGAAAAA--AACTGAGTGCATCGATGCATGG
551868 AT
63 AT
*
551870 TGGTGCATCGGTGCA
1 T-GTGCATCGATGCA
551885 GCACTTTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 9 0.13
64 46 0.66
65 15 0.21
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (64 bp):
TGTGCATCGATGCATAAAAAGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATGGAT
Found at i:552628 original size:34 final size:35
Alignment explanation
Indices: 552573--552644 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
552563 AATAAGTTCA
*
552573 AAACATCAAACAACCATCAAGTTT-AAACATCC-AG
1 AAACATCAAACAACAATCAAGTTTGAAA-ATCCAAG
*
552607 AAACATCAAA-ATCAATCCAAGTTTGAAAATCCAAG
1 AAACATCAAACAACAAT-CAAGTTTGAAAATCCAAG
552642 AAA
1 AAA
552645 TCATAACAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 4 0.12
34 21 0.64
35 8 0.24
ACGTcount: A:0.53, C:0.22, G:0.07, T:0.18
Consensus pattern (35 bp):
AAACATCAAACAACAATCAAGTTTGAAAATCCAAG
Found at i:554621 original size:20 final size:21
Alignment explanation
Indices: 554530--554624 Score: 77
Period size: 21 Copynumber: 4.4 Consensus size: 21
554520 GGCCTTGTGC
*
554530 ATCGATGCACATTCAAGGCGT
1 ATCGATGCACATTCAAGGTGT
* * * *
554551 CCATTGGTGCACCTTCATGGTGT
1 --ATCGATGCACATTCAAGGTGT
*
554574 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
554596 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
554616 ATCGATGCA
1 ATCGATGCA
554625 TTAAGCATAA
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 11 0.19
21 18 0.31
22 13 0.22
23 16 0.28
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:560493 original size:20 final size:20
Alignment explanation
Indices: 560468--560505 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
560458 TGAAAAATTA
560468 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
560488 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
560506 TACTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:560877 original size:2 final size:2
Alignment explanation
Indices: 560870--561068 Score: 88
Period size: 2 Copynumber: 102.0 Consensus size: 2
560860 ACAATATGTT
* *
560870 TA TA TA TA TA TA TA TA TA TA TA TA -A AA GTA TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * * * * *
560913 GTG TA TA AA CTA TA AA GCA TA TA AA CTA TA TA T- TA TA TA AA T-
1 -TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA
560955 TA TA TA TA -A TA TA -A TA TA -A T- TA TA TA TA TA TA TA -A GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
560993 TA TA -A TA TA TA -A T- TG TA TA AA CTA TA TA GGA TA -A GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA
561032 TA TA TA TA TA -A TA TA -A T- TA TA TA TA TA -A GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
561069 CGCATGTATG
Statistics
Matches: 151, Mismatches: 19, Indels: 54
0.67 0.08 0.24
Matches are distributed among these distances:
1 16 0.11
2 124 0.82
3 11 0.07
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (2 bp):
TA
Found at i:560940 original size:32 final size:32
Alignment explanation
Indices: 560876--560958 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
560866 TGTTTATATA
* *
560876 TATATA-TATATATA-TATAAAAGTATATAAAC
1 TATATAGTATATAAACTAT-AAAGCATATAAAC
*
560907 TATATAGTGTATAAACTATAAAGCATATAAAC
1 TATATAGTATATAAACTATAAAGCATATAAAC
* *
560939 TATATATTATATAAATTATA
1 TATATAGTATATAAACTATA
560959 TATAATATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 6 0.14
32 35 0.80
33 3 0.07
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (32 bp):
TATATAGTATATAAACTATAAAGCATATAAAC
Found at i:560967 original size:32 final size:31
Alignment explanation
Indices: 560899--561056 Score: 103
Period size: 32 Copynumber: 5.0 Consensus size: 31
560889 ATATAAAAGT
* * * * **
560899 ATATAAACTATATAGTGTATAAACTATAAAGC
1 ATATAAA-TATATATTATATAAATTATATATA
560931 ATATAAACTATATATTATATAAATTATATATA
1 ATATAAA-TATATATTATATAAATTATATATA
560963 ATAT-AATATA-ATTATAT--A-TATATATA
1 ATATAAATATATATTATATAAATTATATATA
* *
560989 AGTATATAATATATAATTGTATAAACTATATAGGATA
1 A-TATA-AATATAT-ATTATATAAA-T-TATA-TATA
* *
561026 AGTATATATATATATAATAT-AATTATATATA
1 A-TATAAATATATATTATATAAATTATATATA
561057 TAAGTATATA
Statistics
Matches: 103, Mismatches: 12, Indels: 23
0.75 0.09 0.17
Matches are distributed among these distances:
26 9 0.09
27 4 0.04
29 13 0.13
30 4 0.04
31 11 0.11
32 34 0.33
33 2 0.02
34 2 0.02
35 5 0.05
36 10 0.10
37 9 0.09
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (31 bp):
ATATAAATATATATTATATAAATTATATATA
Found at i:560988 original size:53 final size:53
Alignment explanation
Indices: 560870--561054 Score: 172
Period size: 53 Copynumber: 3.5 Consensus size: 53
560860 ACAATATGTT
* *
560870 TATATATATATAT-ATATATA-TATA-AAAGTATATAAACTATATAGTGTATAAAC
1 TATATATATATATAATATATATTATATAAATTATATAAACTATATAG-G-AT-AAG
* * * *
560923 TATAAAGCATATA-AACTATATATTATATAAATTATATATAA-TATA-A-TATAAT
1 TATATA-TATATATAA-TATATATTATATAAATTATATA-AACTATATAGGATAAG
* *
560975 TATATATATATATAAGTATATAATATAT-AATTGTATAAACTATATAGGATAAG
1 TATATATATATATAA-TATATATTATATAAATTATATAAACTATATAGGATAAG
561028 TATATATATATATAATATA-ATTATATA
1 TATATATATATATAATATATATTATATA
561055 TATAAGTATA
Statistics
Matches: 108, Mismatches: 13, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
50 2 0.02
51 23 0.21
52 25 0.23
53 26 0.24
54 6 0.06
55 6 0.06
56 5 0.05
57 13 0.12
58 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (53 bp):
TATATATATATATAATATATATTATATAAATTATATAAACTATATAGGATAAG
Found at i:561055 original size:53 final size:50
Alignment explanation
Indices: 560940--561056 Score: 121
Period size: 51 Copynumber: 2.3 Consensus size: 50
560930 CATATAAACT
** *
560940 ATATATTATATA-AATTATATATAA-TATAATATAATTATATATATATATAA
1 ATATATTATATATAATTATATA-AACTAT-ATAGGATAATATATATATATAA
* * *
560990 GTATATAATATATAATTGTATAAACTATATAGGATAAGTATATATATATATA
1 ATATATTATATATAATTATATAAACTATATAGGATAA-TATATATATATA-A
561042 ATATAATTATATATA
1 ATAT-ATTATATATA
561057 TAAGTATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
50 18 0.33
51 23 0.43
52 4 0.07
53 9 0.17
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (50 bp):
ATATATTATATATAATTATATAAACTATATAGGATAATATATATATATAA
Found at i:563427 original size:23 final size:24
Alignment explanation
Indices: 563381--563431 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
563371 CATCTTATAT
563381 TTATATTTTAAAATTTTAAGTTAA
1 TTATATTTTAAAATTTTAAGTTAA
563405 GTTATA-TTT-AAATTATTAA-TTAA
1 -TTATATTTTAAAATT-TTAAGTTAA
563428 TTAT
1 TTAT
563432 TACATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.16
23 9 0.36
24 7 0.28
25 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TTATATTTTAAAATTTTAAGTTAA
Found at i:564310 original size:19 final size:18
Alignment explanation
Indices: 564267--564320 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
564257 GTCACAACCA
*
564267 GACCCGACCTGTTGAGCC
1 GACCCGACCTGTTGACCC
*
564285 GACCCGACCCGTTGACCC
1 GACCCGACCTGTTGACCC
564303 GAACCCGACCTGTTGACC
1 G-ACCCGACCTGTTGACC
564321 GTTGATCGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.19, C:0.43, G:0.24, T:0.15
Consensus pattern (18 bp):
GACCCGACCTGTTGACCC
Found at i:572914 original size:13 final size:13
Alignment explanation
Indices: 572914--572963 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
572904 GTCAACGGGT
*
572914 CGGGTCGCGTCAA
1 CGGGTCGGGTCAA
572927 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
572940 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
572953 AGGGTCGGGTC
1 CGGGTCGGGTC
572964 GGGTTGTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.14, C:0.24, G:0.46, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:572950 original size:18 final size:18
Alignment explanation
Indices: 572885--572937 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
572875 AACGGTCAAT
* *
572885 GGTCAACAGGTCAGGTCG
1 GGTCAACGGGTCGGGTCG
572903 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
572921 CGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
572938 AACGGGTCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.15, C:0.25, G:0.43, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:572962 original size:31 final size:31
Alignment explanation
Indices: 572885--572967 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
572875 AACGGTCAAT
*
572885 GGTCAACA-GGTCAGGTCGGGTCAACGGGTCG
1 GGTCAA-AGGGTCGGGTCGGGTCAACGGGTCG
*
572916 GGTC---GCGTCAACGGGTCGGGTCAACGGGTCG
1 GGTCAAAGGGT---CGGGTCGGGTCAACGGGTCG
572947 GGTCAAAGGGTCGGGTCGGGT
1 GGTCAAAGGGTCGGGTCGGGT
572968 TGTGACCGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
28 2 0.05
31 37 0.88
34 3 0.07
ACGTcount: A:0.16, C:0.22, G:0.46, T:0.17
Consensus pattern (31 bp):
GGTCAAAGGGTCGGGTCGGGTCAACGGGTCG
Found at i:578513 original size:19 final size:19
Alignment explanation
Indices: 578489--578526 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
578479 TCTATGTGAC
578489 CATTTGATTATATGAGTAT
1 CATTTGATTATATGAGTAT
578508 CATTTGATTATATGAGTAT
1 CATTTGATTATATGAGTAT
578527 AAGAGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
CATTTGATTATATGAGTAT
Found at i:578675 original size:19 final size:20
Alignment explanation
Indices: 578618--578676 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
578608 TTCTACGCGG
578618 TCCTTCGGGACATATATGTGA
1 TCCTTCGGGA-ATATATGTGA
578639 TCCTT-GGGAACTTATATGTGA
1 TCCTTCGGGAA--TATATGTGA
578660 TCCTTCGGG-ATATATGT
1 TCCTTCGGGAATATATGT
578677 TTGGTCCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.23
20 4 0.11
21 20 0.57
22 3 0.09
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (20 bp):
TCCTTCGGGAATATATGTGA
Found at i:578727 original size:44 final size:44
Alignment explanation
Indices: 578616--578776 Score: 118
Period size: 42 Copynumber: 3.7 Consensus size: 44
578606 GGTTCTACGC
* * * * *
578616 GGTCCTTCGGGACA-TATATGTGATCCTTGGGAAC-TTATATGT
1 GGTCCTACGGGACATTCTATGTGGTCCTTCGGAACATTATATAT
* * * *
578658 GATCCTTCGGGATATATGT-T-TGGTCCTTTC-GAACA-TATATAT
1 GGTCCTACGGGACAT-TCTATGTGGTCC-TTCGGAACATTATATAT
* * *
578700 GGTCCTACGGGACAATTCTATGTGGTCCTTCGGGACATTCTATGT
1 GGTCCTACGGGAC-ATTCTATGTGGTCCTTCGGAACATTATATAT
* * *
578745 GGTCCTTCGGGACATTCTATGTGATACTTCGG
1 GGTCCTACGGGACATTCTATGTGGTCCTTCGG
578777 TGCATATTCT
Statistics
Matches: 94, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
42 39 0.41
43 9 0.10
44 29 0.31
45 17 0.18
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (44 bp):
GGTCCTACGGGACATTCTATGTGGTCCTTCGGAACATTATATAT
Found at i:578799 original size:46 final size:45
Alignment explanation
Indices: 578699--578800 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 45
578689 AACATATATA
* * *
578699 TGGTCCTACGGGACAATTCTATGTGGTCCTTCGGGACATTCTATG
1 TGGTCCTTCGGGACAATTCTATGTGATACTTCGGGACATTCTATG
*
578744 TGGTCCTTCGGGAC-ATTCTATGTGATACTTCGGTGCATATTCTATG
1 TGGTCCTTCGGGACAATTCTATGTGATACTTCGG-G-ACATTCTATG
578790 TGG-CACTTCGG
1 TGGTC-CTTCGG
578801 TGCATTTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 17 0.34
45 15 0.30
46 18 0.36
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (45 bp):
TGGTCCTTCGGGACAATTCTATGTGATACTTCGGGACATTCTATG
Found at i:578805 original size:24 final size:22
Alignment explanation
Indices: 578616--578800 Score: 134
Period size: 22 Copynumber: 8.5 Consensus size: 22
578606 GGTTCTACGC
*
578616 GGTCCTTCGGGACA-TATATGT
1 GGTCCTTCGGGACATTCTATGT
* *
578637 GATCCTT-GGGA-ACTTATATGT
1 GGTCCTTCGGGACA-TTCTATGT
* * *
578658 GATCCTTCGGGATATATGT-T-T
1 GGTCCTTCGGGACAT-TCTATGT
* * *
578679 GGTCCTTTC-GAACA-TATATAT
1 GGTCC-TTCGGGACATTCTATGT
*
578700 GGTCCTACGGGACAATTCTATGT
1 GGTCCTTCGGGAC-ATTCTATGT
578723 GGTCCTTCGGGACATTCTATGT
1 GGTCCTTCGGGACATTCTATGT
578745 GGTCCTTCGGGACATTCTATGT
1 GGTCCTTCGGGACATTCTATGT
* * *
578767 GATACTTCGGTGCATATTCTATGT
1 GGTCCTTCGG-G-ACATTCTATGT
578791 GG-CACTTCGG
1 GGTC-CTTCGG
578801 TGCATTTTAT
Statistics
Matches: 134, Mismatches: 16, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.02
20 7 0.05
21 37 0.28
22 49 0.37
23 21 0.16
24 17 0.13
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTATGT
Found at i:580695 original size:31 final size:31
Alignment explanation
Indices: 580660--580722 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
580650 TAACACCAAG
580660 TAAGACAGTTCATGGTGCTATAAAAAAGTCA
1 TAAGACAGTTCATGGTGCTATAAAAAAGTCA
580691 TAAGACAGTTCATGGTGCTATAAAAAAGTCA
1 TAAGACAGTTCATGGTGCTATAAAAAAGTCA
580722 T
1 T
580723 CCAAGTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (31 bp):
TAAGACAGTTCATGGTGCTATAAAAAAGTCA
Found at i:583285 original size:90 final size:88
Alignment explanation
Indices: 583129--583292 Score: 292
Period size: 90 Copynumber: 1.8 Consensus size: 88
583119 TTTCATAGCC
*
583129 AAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAATCTATATTTAATTAATTGA
1 AAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATAAATCTATATTTAATTAATTGA
*
583194 AATTTAATAATCCTCTTATATCT
66 AATTAAATAATCCTCTTATATCT
583217 AAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAACTAAATCTATATTTAATTAATT
1 AAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAA-TAAATCTATATTTAATTAATT
583282 GAAATTAAATA
64 GAAATTAAATA
583293 TTCGGGATTA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
88 23 0.32
89 19 0.26
90 30 0.42
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (88 bp):
AAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATAAATCTATATTTAATTAATTGA
AATTAAATAATCCTCTTATATCT
Found at i:602315 original size:41 final size:39
Alignment explanation
Indices: 602245--602325 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 39
602235 TTTCGCATCC
* * *
602245 GTTATGCTTATATATATATAAAAGTATGTA-AGTATATAT
1 GTTATACTTACATACATATAAAAGTATGTACA-TATATAT
*
602284 GTTATACTTACATACATATAACAATTCATGTACATATATAT
1 GTTATACTTACATACATATAA-AAGT-ATGTACATATATAT
602325 G
1 G
602326 GTGTATGTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 18 0.51
40 3 0.09
41 13 0.37
42 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (39 bp):
GTTATACTTACATACATATAAAAGTATGTACATATATAT
Found at i:602335 original size:19 final size:19
Alignment explanation
Indices: 602311--602380 Score: 104
Period size: 19 Copynumber: 3.6 Consensus size: 19
602301 ATAACAATTC
* *
602311 ATGTACATATATATGGTGT
1 ATGTACATATGTATGATGT
602330 ATGTACATAAGTGTATGATGT
1 ATGTACAT-A-TGTATGATGT
602351 ATGTACATATGTATGATGT
1 ATGTACATATGTATGATGT
602370 ATGTACATATG
1 ATGTACATATG
602381 CATGTACATA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
19 29 0.62
20 2 0.04
21 16 0.34
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (19 bp):
ATGTACATATGTATGATGT
Found at i:606420 original size:23 final size:25
Alignment explanation
Indices: 606384--606430 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
606374 CATCTTTTAT
606384 ATATATTCTAAAATT-TTAAGTTAAA
1 ATATATTCTAAAATTATTAA-TTAAA
606409 ATATATT-T-AAATTATTAATTAA
1 ATATATTCTAAAATTATTAATTAA
606431 TTATTACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATATTCTAAAATTATTAATTAAA
Found at i:606536 original size:14 final size:13
Alignment explanation
Indices: 606517--606549 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
606507 AATAAGTTAT
606517 TTATAATTATATGA
1 TTATAATT-TATGA
606531 TTATAA-TTATGA
1 TTATAATTTATGA
606543 TTATAAT
1 TTATAAT
606550 ATAAGGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.61
13 1 0.06
14 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (13 bp):
TTATAATTTATGA
Found at i:606567 original size:21 final size:22
Alignment explanation
Indices: 606543--606590 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
606533 ATAATTATGA
*
606543 TTATAATATAAGGTTTAT-AAT
1 TTATAATATAAGGATTATAAAT
* *
606564 TTATAATGTGAGGATTATAAAT
1 TTATAATATAAGGATTATAAAT
606586 TTATA
1 TTATA
606591 TAGAAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (22 bp):
TTATAATATAAGGATTATAAAT
Found at i:606715 original size:20 final size:19
Alignment explanation
Indices: 606678--606715 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
606668 TATTATAAAT
*
606678 TTAAAATCTCATAACTTCA
1 TTAAAATCTCAAAACTTCA
606697 TTAAAATCTCACAAACTTC
1 TTAAAATCTCA-AAACTTC
606716 CTCAATTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAATCTCAAAACTTCA
Found at i:608015 original size:35 final size:31
Alignment explanation
Indices: 607922--608043 Score: 136
Period size: 32 Copynumber: 3.7 Consensus size: 31
607912 TTTAAAATAT
* *
607922 ATATATTATATAGTTTGAAATCATTTTGAAAA
1 ATATATTATATAGTTTTAAAACATTTTG-AAA
* *
607954 ATATAATATATGGTTTTAAAACATTTTGAAGA
1 ATATATTATATAGTTTTAAAACATTTTGAA-A
607986 CATATATTATATAGATTTTAAAACAATTTTTGAAA
1 -ATATATTATATAG-TTTTAAAAC-A-TTTTGAAA
608021 ATATATATATATAGTTTTGAAAA
1 ATATAT-TATATAGTTTT-AAAA
608044 TTAGTTTTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
31 2 0.03
32 25 0.32
33 11 0.14
34 19 0.25
35 13 0.17
36 7 0.09
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (31 bp):
ATATATTATATAGTTTTAAAACATTTTGAAA
Found at i:608064 original size:14 final size:14
Alignment explanation
Indices: 608029--608122 Score: 92
Period size: 13 Copynumber: 7.1 Consensus size: 14
608019 AAATATATAT
608029 ATATAGTTTTGAAA
1 ATATAGTTTTGAAA
*
608043 AT-TAGTTTTAAAA
1 ATATAGTTTTGAAA
608056 ATATAGTTTTGAAA
1 ATATAGTTTTGAAA
*
608070 AT-TAGTTTTTAAA
1 ATATAGTTTTGAAA
* **
608083 ATATA--TAT-ATT
1 ATATAGTTTTGAAA
608094 ATATAGTTTTGAAA
1 ATATAGTTTTGAAA
*
608108 AT-TAGTTTTTAAA
1 ATATAGTTTTGAAA
608121 AT
1 AT
608123 TTATATATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
11 6 0.09
12 2 0.03
13 38 0.58
14 19 0.29
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
ATATAGTTTTGAAA
Found at i:608067 original size:27 final size:27
Alignment explanation
Indices: 608029--608087 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
608019 AAATATATAT
608029 ATATAGTTTTGAAAATTAGTTTTAAAA
1 ATATAGTTTTGAAAATTAGTTTTAAAA
*
608056 ATATAGTTTTGAAAATTAGTTTTTAAA
1 ATATAGTTTTGAAAATTAGTTTTAAAA
608083 ATATA
1 ATATA
608088 TATATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (27 bp):
ATATAGTTTTGAAAATTAGTTTTAAAA
Found at i:608156 original size:37 final size:38
Alignment explanation
Indices: 608056--608191 Score: 204
Period size: 38 Copynumber: 3.6 Consensus size: 38
608046 AGTTTTAAAA
608056 ATATAGTTTTGAAAATTAGTTTTTAAAATATATATATT
1 ATATAGTTTTGAAAATTAGTTTTTAAAATATATATATT
*
608094 ATATAGTTTTGAAAATTAGTTTTTAAAATTTATATATT
1 ATATAGTTTTGAAAATTAGTTTTTAAAATATATATATT
* * *
608132 ATATGGTTTTG-AAATTATTTTTTAAAACATATATATT
1 ATATAGTTTTGAAAATTAGTTTTTAAAATATATATATT
* *
608169 ATATAGTTTTAAAAAAT-GTTTTT
1 ATATAGTTTTGAAAATTAGTTTTT
608192 TTATCTATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
37 37 0.42
38 51 0.58
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (38 bp):
ATATAGTTTTGAAAATTAGTTTTTAAAATATATATATT
Found at i:608206 original size:4 final size:4
Alignment explanation
Indices: 608191--608232 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
608181 AAAATGTTTT
*
608191 TTTA TCTA TTTA TTTA TTTA TTTCA TTTA -TTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTT
608233 CTTTTTTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 6 0.18
4 23 0.70
5 4 0.12
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:609537 original size:22 final size:22
Alignment explanation
Indices: 609490--609544 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
609480 TTTTCCTTAT
* * *
609490 TTTTTATTTATTCTTTTTTTCC
1 TTTTAATTTATCCTTTTTTTCA
609512 TTTTAATTTATCCTTTTATTT-A
1 TTTTAATTTATCCTTTT-TTTCA
*
609534 TTTTATTTTAT
1 TTTTAATTTAT
609545 TTTATTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTAATTTATCCTTTTTTTCA
Found at i:609538 original size:5 final size:5
Alignment explanation
Indices: 609525--609613 Score: 64
Period size: 5 Copynumber: 17.8 Consensus size: 5
609515 TAATTTATCC
609525 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTT- TGTTCT- TTTTAA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TT-TA TTTT-A
* *
609570 TTTT- TTTTA TTTT- TATTTG TTCT- TTTTA TTTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA -TTTTA -TTTTA TTTT
609614 TGTTCTTTCT
Statistics
Matches: 72, Mismatches: 2, Indels: 20
0.77 0.02 0.21
Matches are distributed among these distances:
4 14 0.19
5 40 0.56
6 18 0.25
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:609545 original size:10 final size:9
Alignment explanation
Indices: 609525--609629 Score: 70
Period size: 9 Copynumber: 11.1 Consensus size: 9
609515 TAATTTATCC
*
609525 TTTTATTTA
1 TTTTATTTT
609534 TTTTATTTT
1 TTTTATTTT
609543 ATTTTATTTT
1 -TTTTATTTT
609553 ATTTT-TGTTCT
1 -TTTTAT-TT-T
609564 TTTTAATTTT
1 TTTT-ATTTT
609574 TTTTATTTT
1 TTTTATTTT
* *
609583 TATTTGTTCT
1 T-TTTATTTT
609593 TTTTATTTT
1 TTTTATTTT
*
609602 TATTT-TTAT
1 T-TTTATTTT
* *
609611 TTTTGTTCT
1 TTTTATTTT
*
609620 TTCTATTTT
1 TTTTATTTT
609629 T
1 T
609630 ACTTTTATAT
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
8 3 0.04
9 36 0.46
10 35 0.45
11 3 0.04
12 1 0.01
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTATTTT
Found at i:609574 original size:27 final size:27
Alignment explanation
Indices: 609539--609642 Score: 115
Period size: 27 Copynumber: 3.8 Consensus size: 27
609529 ATTTATTTTA
609539 TTTTA-TTTTA-TTTTATTTTTGTTCT
1 TTTTATTTTTACTTTTATTTTTGTTCT
* *
609564 TTTTAATTTTT-TTTATTTTTATTTGTTCT
1 TTTT-ATTTTTACTT-TTATT-TTTGTTCT
*
609593 TTTTATTTTTATTTTTATTTTTGTTCT
1 TTTTATTTTTACTTTTATTTTTGTTCT
*
609620 TTCTATTTTTACTTTTATATTTT
1 TTTTATTTTTACTTTTAT-TTTT
609643 TCCTTTCTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.06
26 1 0.01
27 30 0.44
28 18 0.26
29 15 0.22
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (27 bp):
TTTTATTTTTACTTTTATTTTTGTTCT
Found at i:609577 original size:25 final size:24
Alignment explanation
Indices: 609539--609629 Score: 92
Period size: 25 Copynumber: 3.4 Consensus size: 24
609529 ATTTATTTTA
609539 TTTTATTTTATTTTATTTTTGTTCT
1 TTTTATTTT-TTTTATTTTTGTTCT
609564 TTTTAATTTTTTTTATTTTTATTTGTTCT
1 TTTT-ATTTTTTTTA---TT-TTTGTTCT
609593 TTTTATTTTTATTTTTATTTTTGTTCT
1 TTTTA--TTT-TTTTTATTTTTGTTCT
*
609620 TTCTATTTTT
1 TTTTATTTTT
609630 ACTTTTATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
24 2 0.04
25 12 0.21
26 5 0.09
27 12 0.21
28 5 0.09
29 12 0.21
30 3 0.05
31 6 0.11
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.80
Consensus pattern (24 bp):
TTTTATTTTTTTTATTTTTGTTCT
Found at i:609582 original size:6 final size:6
Alignment explanation
Indices: 609530--609643 Score: 78
Period size: 6 Copynumber: 18.5 Consensus size: 6
609520 TATCCTTTTA
*
609530 TTTA-T TTTA-T TTTA-T TTTA-T TTTATT TTTGTT CTTT-TT AATTT-TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT --TTTATT
* *
609575 TTTATT TTTATT TGTTCTT TTTATT TTTATT TTTATT TTTGTTCT TTCTATT
1 TTTATT TTTATT T-TTATT TTTATT TTTATT TTTATT TTT-AT-T TT-TATT
609627 TTTACTT TTATATT TTT
1 TTTA-TT TT-TATT TTT
609644 CCTTTCTTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 19
0.79 0.05 0.16
Matches are distributed among these distances:
5 22 0.24
6 39 0.42
7 25 0.27
8 6 0.06
9 1 0.01
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:609613 original size:40 final size:39
Alignment explanation
Indices: 609490--609643 Score: 109
Period size: 40 Copynumber: 3.8 Consensus size: 39
609480 TTTTCCTTAT
* * * **
609490 TTTTTATTTATTCTTT-TTTTCCTTTTAATTTATCCTTTTA
1 TTTTT-TTTATT-TTTATTTTTCTTTTTATTTTTATTTTTA
* *
609530 TTTATTTTATTTT-ATTTTAT-TTTATT-TTTGTTCTTTTTAA
1 TTTTTTTTATTTTTATTTT-TCTTT-TTATTT-TTATTTTT-A
609570 TTTTTTTTATTTTTATTTGTTCTTTTTATTTTTATTTTTA
1 TTTTTTTTATTTTTATTT-TTCTTTTTATTTTTATTTTTA
* * *
609610 TTTTTGTTCTTTCTATTTTTACTTTTATATTTTT
1 TTTTTTTTATTTTTATTTTT-CTTTT-TATTTTT
609644 CCTTTCTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
38 12 0.13
39 15 0.16
40 38 0.41
41 21 0.23
42 7 0.08
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.77
Consensus pattern (39 bp):
TTTTTTTTATTTTTATTTTTCTTTTTATTTTTATTTTTA
Found at i:609643 original size:15 final size:14
Alignment explanation
Indices: 609530--609643 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
609520 TATCCTTTTA
*
609530 TTTATTTTATTTTAT
1 TTTATTTTATATT-T
609545 TTTATTTTAT-TTT
1 TTTATTTTATATTT
* *
609558 TGTTCTTTTTAATTTTT
1 T-TT-ATTTT-ATATTT
609575 TTTATTTT-TATTT
1 TTTATTTTATATTT
* *
609588 GTTCTTTT-TA-TT
1 TTTATTTTATATTT
609600 TTTATTTT-TATTT
1 TTTATTTTATATTT
*
609613 TTGT-TCTTTCTA-TT
1 TT-TAT-TTTATATTT
609627 TTTACTTTTATATTT
1 TTTA-TTTTATATTT
609642 TT
1 TT
609644 CCTTTCTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
12 10 0.12
13 20 0.25
14 17 0.21
15 25 0.31
16 4 0.05
17 4 0.05
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTATTTTATATTT
Found at i:609648 original size:27 final size:25
Alignment explanation
Indices: 609573--609650 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 25
609563 TTTTTAATTT
*
609573 TTTTTATTTT-TATTTGTTCTTTTTA
1 TTTTTATTTTATATTT-TTCTTTCTA
*
609598 TTTTTATTTTTATTTTTGTTCTTTCTA
1 TTTTTA-TTTTATATTT-TTCTTTCTA
609625 TTTTTACTTTTATATTTTTCCTTTCT
1 TTTTTA-TTTTATATTTTT-CTTTCT
609651 TTTGGTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.13
26 6 0.13
27 34 0.74
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTATATTTTTCTTTCTA
Found at i:609660 original size:56 final size:56
Alignment explanation
Indices: 609539--609641 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
609529 ATTTATTTTA
* ** *
609539 TTTTA-TTTTA-TTTTATTTTTGTTCTTTTTAATTTTTTTTATTTTTATTTGTTCT
1 TTTTATTTTTATTTTTATTTTTGTTCTTTCTAATTTTTACTATTTATATTTGTTCT
609593 TTTTATTTTTATTTTTATTTTTGTTCTTTCT-ATTTTTACT-TTTATATTT
1 TTTTATTTTTATTTTTATTTTTGTTCTTTCTAATTTTTACTATTTATATTT
609642 TTCCTTTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
54 13 0.30
55 12 0.28
56 18 0.42
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.79
Consensus pattern (56 bp):
TTTTATTTTTATTTTTATTTTTGTTCTTTCTAATTTTTACTATTTATATTTGTTCT
Found at i:613811 original size:97 final size:97
Alignment explanation
Indices: 613672--613907 Score: 312
Period size: 97 Copynumber: 2.4 Consensus size: 97
613662 AAAGCTTGAA
* * *
613672 CTGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTATGGATAAGATTCAGCTAGCCTGATAA
1 CTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAGATTCAGCTAGCCTGAAAA
* * *
613737 AGGTGATTATAATATTTGTATAA-AAACTTGAG
66 AGGTGATTATAATATCTATATAAGAAA-TTAAG
* * *
613769 TTGTCCCTCTAGAGCAATTGGTTAAACGCCTCGACTTTATGGATAATATTCAGCTAGCCTGAAAA
1 CTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAGATTCAGCTAGCCTGAAAA
* *
613834 AGGTGGTTATAATATCTATATAATGATATTAAG
66 AGGTGATTATAATATCTATATAA-GAAATTAAG
* * * *
613867 CTGCCCCTCTAGAGTAATTGGTTAAACGCCCTGGCTTTATG
1 CTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATG
613908 TATTCAGCTA
Statistics
Matches: 120, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
97 79 0.66
98 39 0.32
99 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (97 bp):
CTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAGATTCAGCTAGCCTGAAAA
AGGTGATTATAATATCTATATAAGAAATTAAG
Found at i:615141 original size:83 final size:84
Alignment explanation
Indices: 615002--615872 Score: 1026
Period size: 84 Copynumber: 10.5 Consensus size: 84
614992 AATTATTGGT
* * * *
615002 AGCATAACTCAAGGCTAAAAGGGTTATCTGCTAAAAAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
* *
615067 TCCAA-GCACATCATTTGC
66 TCAAAGGCACATCATTTAC
*
615085 AGCATAACTCAAGGCTAGAAGGTTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
* * * **
615150 TCCAAGGCGCATCTTTTGT
66 TCAAAGGCACATCATTTAC
* * * * * * *
615169 AGCATAGCTCAAGGCAAGAAGGGTTATCTG---TC-AAAGAACTTCGAGTTCGATTACACTTAAC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
*
615230 TCAAAGGCACATCATTTAT
66 TCAAAGGCACATCATTTAC
* * *
615249 AGCATAAATCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGACCTTTGAGTTCGACTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
*
615313 TCCAAGGCACATCATTTAC
66 TCAAAGGCACATCATTTAC
* * * **
615332 AGCATAACTCAAAGCTAGAATGGTTATCTTCCAACAAAAGACCTTCGAGTTCGACTATGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
* * *
615397 TCCATGGCACATCATTTGC
66 TCAAAGGCACATCATTTAC
* * * * * **
615416 AACATAGCTCAAGGCTAAAAGGGCTATTTGCCAAC-AAAGACCTTCGAGTT-GACTATGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
615479 TCAAAGGCACATCATTTAC
66 TCAAAGGCACATCATTTAC
* * * * * * *
615498 AGAATCACTCAAGGCTTGAAGGGTTATCTGCCATCAAAAGACCTTCGAGTTTGATTACACTCACC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
* * * *
615563 TCAAACGTACAACATTTGC
66 TCAAAGGCACATCATTTAC
* * * *
615582 AGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAGCAAAAGACCTTCGAGTTCGACTACGA-TCAG
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC-ACTCAG
* *
615646 CTCCAAGGCACATCATTTGC
65 CTCAAAGGCACATCATTTAC
* * * *
615666 AACATAGCTCAAGGCTAGAA-GGTCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACATTCAG
1 AGCATAACTCAAGGCTAGAAGGGT-TATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAG
615730 CTCAAAGGCACATCATTTAC
65 CTCAAAGGCACATCATTTAC
* *
615750 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
*
615814 TCAAAGGCACGTCAATTTAC
66 TCAAAGGCACATC-ATTTAC
* * * * *
615834 AGCATAGCTCAAGGCAATAAAGGTTATCTGTCAACAAAA
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAA
615873 TTTTCAAGTT
Statistics
Matches: 674, Mismatches: 101, Indels: 24
0.84 0.13 0.03
Matches are distributed among these distances:
80 67 0.10
81 1 0.00
82 55 0.08
83 209 0.31
84 335 0.50
85 7 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (84 bp):
AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGC
TCAAAGGCACATCATTTAC
Found at i:615702 original size:334 final size:329
Alignment explanation
Indices: 615004--615867 Score: 1108
Period size: 334 Copynumber: 2.6 Consensus size: 329
614994 TTATTGGTAG
* * * *
615004 CATAACTCAAGGCTAAAAGGGTTATCTGCTAAAAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* *
615069 CAAGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGTTTATCTGCCAACAAAAGACCTTCGAG
66 CAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAG
* * * **
615134 TTCGACTACACTCAGCTCCAAGGCGCATCTTTTGTAGCATAGCTCAAGGCAAGAAGGGTTATCTG
130 TTCGACTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGTTATCTG
* * * *
615199 TCAAAGAACTTCGAGTTCGATTACACTTAACTCAAAGGCACATCATTTATAGCATAAATCAAGGC
195 TCAAAGAACTTCGAGTTCGATTACACTCAACTCAAACGCACAACATTTACAGCATAAATCAAGGC
* * * *
615264 TAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
260 GAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
*
615329 TACAG
325 TACAA
* * *
615334 CATAACTCAAAGCTAGAATGGTTATCTT-CCAACAAAAGACCTTCGAGTTCGACTATGCTCAGCT
1 CATAACTCAAGGCTAGAAGGGTTAT-TTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * * *
615398 CCATGGCACATCATTTGCAACATAGCTCAAGGCTAAAAGGGCTATTTGCCAACAAAGACCTTCGA
65 CCA-GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGA
** * **
615463 GTT-GACTATGCTCAGCTCAAAGGCACATCATTTACAGAATCA-CTCAAGGCTTGAAGGGTTATC
129 GTTCGACTACACTCAGCTCAAAGGCACATCATTTACAGCAT-AGCTCAAGGCAAGAAGGGTTATC
* * * * * **
615526 TGCCATCAAAAGACCTTCGAGTTTGATTACACTCACCTCAAACGTACAACATTTGCAGCATAGCT
193 TG---TC-AAAGAACTTCGAGTTCGATTACACTCAACTCAAACGCACAACATTTACAGCATAAAT
*
615591 CAAGGCGAGAAGGGCTATCTGCCAGCAAAAGACCTTCGAGTTCGACTACGA-TCAGCTCCAAGGC
254 CAAGGCGAGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGACTAC-ACTCAGCTCCAAGGC
*
615655 ACATCATTTGCAA
317 ACATCATTTACAA
* **
615668 CATAGCTCAAGGCTAGAA-GGTCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACATTCAGCT
1 CATAACTCAAGGCTAGAAGGGT-TATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * *
615732 CAAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGA
65 C-CAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGA
* * * *
615797 GTTCGATTACACTCAGCTCAAAGGCACGTCAATTTACAGCATAGCTCAAGGCAATAAAGGTTATC
129 GTTCGACTACACTCAGCTCAAAGGCACATC-ATTTACAGCATAGCTCAAGGCAAGAAGGGTTATC
615862 TGTCAA
193 TGTCAA
615868 CAAAATTTTC
Statistics
Matches: 455, Mismatches: 64, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
329 50 0.11
330 74 0.16
331 43 0.09
332 4 0.01
333 75 0.16
334 155 0.34
335 25 0.05
336 29 0.06
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (329 bp):
CATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
CAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGT
TCGACTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGTTATCTGT
CAAAGAACTTCGAGTTCGATTACACTCAACTCAAACGCACAACATTTACAGCATAAATCAAGGCG
AGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
ACAA
Found at i:616473 original size:37 final size:35
Alignment explanation
Indices: 616432--616555 Score: 99
Period size: 37 Copynumber: 3.3 Consensus size: 35
616422 TTTTTTTATT
*
616432 TATATATATATTATACATTTTGCAAATGATGTTGAAA
1 TATATATATATTATA-ATTTTG-AAATGATTTTGAAA
*
616469 TATATA-ATATATATAGTTTTGAAAAATGATTTTTTTG-AA
1 TATATATATAT-TATAATTTTG--AAATGA---TTTTGAAA
* *
616508 TATATATATATTATATAGTTTGAAATCATTTTGAAA
1 TATATATATATTATA-ATTTTGAAATGATTTTGAAA
*
616544 AATATAATATAT
1 TATAT-ATATAT
616556 GGTTTTAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
35 5 0.07
36 15 0.21
37 22 0.31
38 5 0.07
39 12 0.17
40 12 0.17
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (35 bp):
TATATATATATTATAATTTTGAAATGATTTTGAAA
Found at i:616555 original size:32 final size:32
Alignment explanation
Indices: 616513--616618 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
616503 TTGAATATAT
* * *
616513 ATATATTATATAGTTTGAAATCATTTTGAAAA
1 ATATAATATATAGTTTTAAAACATTTTGAAAA
* * *
616545 ATATAATATATGGTTTTAAAACACTTTGAAGAC
1 ATATAATATATAGTTTTAAAACATTTTGAA-AA
616578 ATA-AATTATATAGATTTTAAAACAATTTTTGAAAA
1 ATATAA-TATATAG-TTTTAAAAC-A-TTTTGAAAA
616613 CATATA
1 -ATATA
616619 TATTATTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
32 27 0.47
33 10 0.17
34 9 0.16
35 2 0.03
36 9 0.16
37 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (32 bp):
ATATAATATATAGTTTTAAAACATTTTGAAAA
Found at i:616674 original size:13 final size:13
Alignment explanation
Indices: 616656--616710 Score: 65
Period size: 13 Copynumber: 4.0 Consensus size: 13
616646 TATATATATA
616656 TAGTTTTGAAAAT
1 TAGTTTTGAAAAT
*
616669 TAGTTTTTAAAAAAT
1 TAG-TTTT-GAAAAT
616684 ATAGTTTTGAAAAT
1 -TAGTTTTGAAAAT
*
616698 TAGTTTTTAAAAT
1 TAGTTTTGAAAAT
616711 ATATATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 15 0.42
14 9 0.25
15 9 0.25
16 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (13 bp):
TAGTTTTGAAAAT
Found at i:616681 original size:14 final size:14
Alignment explanation
Indices: 616659--616709 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
616649 ATATATATAG
*
616659 TTTTGAAAATTAGT
1 TTTTAAAAATTAGT
616673 TTTTAAAAAATATAG-
1 TTTT-AAAAAT-TAGT
*
616688 TTTTGAAAATTAGT
1 TTTTAAAAATTAGT
616702 TTTTAAAA
1 TTTTAAAA
616710 TATATATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.10
14 16 0.52
15 9 0.29
16 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTAAAAATTAGT
Found at i:616687 original size:29 final size:29
Alignment explanation
Indices: 616653--616715 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
616643 ATATATATAT
616653 ATATAGTTTTGAAAATTAGTTTTTAAAAA
1 ATATAGTTTTGAAAATTAGTTTTTAAAAA
*
616682 ATATAGTTTTGAAAATTAGTTTTTAAAAT
1 ATATAGTTTTGAAAATTAGTTTTTAAAAA
616711 ATATA
1 ATATA
616716 TATTATATAG
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:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (29 bp):
ATATAGTTTTGAAAATTAGTTTTTAAAAA
Found at i:616731 original size:38 final size:37
Alignment explanation
Indices: 616682--616811 Score: 188
Period size: 38 Copynumber: 3.4 Consensus size: 37
616672 TTTTTAAAAA
*
616682 ATATAGTTTTGAAAATTAGTTTTTAAAATATATATATT
1 ATATAGTTTTGAAAATTATTTTTTAAAA-ATATATATT
616720 ATATAGTTTTGAAAATTATTTTTTAAAAATTATATATT
1 ATATAGTTTTGAAAATTATTTTTTAAAAA-TATATATT
* * *
616758 ATATGGTTTCGAAAAATATTTTTTTAAAACATATATATT
1 ATATAGTTTTGAAAATTA-TTTTTTAAAA-ATATATATT
616797 ATATAGTTTTGAAAA
1 ATATAGTTTTGAAAA
616812 AAAATTATTT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
37 1 0.01
38 50 0.60
39 31 0.37
40 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (37 bp):
ATATAGTTTTGAAAATTATTTTTTAAAAATATATATT
Found at i:618202 original size:32 final size:31
Alignment explanation
Indices: 618144--618214 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
618134 CATTTTTTGA
*
618144 TTTTTTTTCCTTTTTTCCTTATTTTTTATTTAT
1 TTTTTTTTCC-TTTTTCATTATTTTTTATTT-T
*
618177 TTTTTTTTCC-TTTTGATTATCTTTTTATTTT
1 TTTTTTTTCCTTTTTCATTAT-TTTTTATTTT
*
618208 TATTTTT
1 TTTTTTT
618215 ATTTTTGTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 15 0.44
32 9 0.26
33 10 0.29
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.79
Consensus pattern (31 bp):
TTTTTTTTCCTTTTTCATTATTTTTTATTTT
Found at i:619353 original size:20 final size:21
Alignment explanation
Indices: 619310--619353 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
619300 TAAGATATTA
*
619310 ATTT-ATTTTGAATAAATTGT
1 ATTTAATTTTAAATAAATTGT
619330 -TTTAATTTTAAATAAATT-T
1 ATTTAATTTTAAATAAATTGT
619349 ATTTA
1 ATTTA
619354 GTTTAGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTAATTTTAAATAAATTGT
Found at i:626060 original size:2 final size:2
Alignment explanation
Indices: 626055--626086 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
626045 GGTTTTTGAA
626055 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
626087 GTTTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:626122 original size:37 final size:35
Alignment explanation
Indices: 626073--626388 Score: 282
Period size: 37 Copynumber: 8.7 Consensus size: 35
626063 ATATATATAT
* *
626073 ATATATAATATATAGTTTTTTAAAACATTTTAAAAA
1 ATATATAATATATAG-TTTTGAAAACATTTTGAAAA
626109 CATATATAATATATAGTTTTTGAAAACATTTTTG-AAA
1 -ATATATAATATATAG-TTTTGAAAACA-TTTTGAAAA
* *
626146 ATATATATTATATAATTTTGAAAACATTTTGAAAA
1 ATATATAATATATAGTTTTGAAAACATTTTGAAAA
*
626181 CATATAT--TATATAATTTTGAAAACATTTTTGAAAATA
1 -ATATATAATATATAGTTTTGAAAACA-TTTTG-AAA-A
*
626218 TATATATAATATATAGTTTTGAAAATATTTTTGAAAA
1 -ATATATAATATATAGTTTTGAAAACA-TTTTGAAAA
* ****
626255 TGTATATAATATATAGTTTTGAATTTTTTTTTG-AAA
1 -ATATATAATATATAGTTTTGAA-AACATTTTGAAAA
* *
626291 ATATATATTATATAGTTTTAAAAACAATTTTTG-AAA
1 ATATATAATATATAGTTTTGAAAAC-A-TTTTGAAAA
* * *
626327 ATATATATTATATGGTTTTGAAAACAATTTTTGAAAGC
1 ATATATAATATATAGTTTTGAAAAC-A-TTTTGAAA-A
* *
626365 ATATAGAATATATAGTTTTAAAAA
1 ATATATAATATATAGTTTTGAAAA
626389 TGATTTTTAT
Statistics
Matches: 241, Mismatches: 25, Indels: 25
0.83 0.09 0.09
Matches are distributed among these distances:
34 23 0.10
35 38 0.16
36 64 0.27
37 66 0.27
38 28 0.12
39 22 0.09
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
ATATATAATATATAGTTTTGAAAACATTTTGAAAA
Found at i:626150 original size:36 final size:36
Alignment explanation
Indices: 626073--626383 Score: 312
Period size: 36 Copynumber: 8.5 Consensus size: 36
626063 ATATATATAT
* **
626073 ATATATAATATATAGTTTTTTAAAACATTTTAAAAA
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAA
626109 CATATATAATATATAGTTTTTGAAAACATTTTTGAAA
1 -ATATATAATATATAGTTTTTGAAAACATTTTTGAAA
* *
626146 ATATATATTATATA-ATTTTGAAAACA-TTTTGAAA
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAA
* * *
626180 ACATATATTATATA-ATTTTGAAAACATTTTTGAAA
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAA
*
626215 ATATATATATAATATA-TAGTTTTGAAAATATTTTTGAAA
1 ATATATA-AT-ATATAGT--TTTTGAAAACATTTTTGAAA
****
626254 ATGTATATAATATATAG-TTTTGAATTTTTTTTTGAAA
1 A--TATATAATATATAGTTTTTGAAAACATTTTTGAAA
* *
626291 ATATATATTATATAG-TTTTAAAAACAATTTTTGAAA
1 ATATATAATATATAGTTTTTGAAAAC-ATTTTTGAAA
* *
626327 ATATATATTATAT-GGTTTTGAAAACAATTTTTGAAA
1 ATATATAATATATAGTTTTTGAAAAC-ATTTTTGAAA
*
626363 GCATATAGAATATATAGTTTT
1 --ATATATAATATATAGTTTT
626384 AAAAATGATT
Statistics
Matches: 238, Mismatches: 23, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
34 33 0.14
35 45 0.19
36 56 0.24
37 56 0.24
38 11 0.05
39 29 0.12
40 2 0.01
41 6 0.03
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (36 bp):
ATATATAATATATAGTTTTTGAAAACATTTTTGAAA
Found at i:626434 original size:25 final size:24
Alignment explanation
Indices: 626396--626459 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
626386 AAATGATTTT
*
626396 TATTTTTGTTTTATATTA-TATTAA
1 TATTTTTATTTTAT-TTATTATTAA
626420 TATTATTTATTTTATTTATTATTAA
1 TATT-TTTATTTTATTTATTATTAA
*
626445 TTTTTTTA-TTTATTT
1 TATTTTTATTTTATTT
626460 TGTGTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 7 0.19
24 11 0.31
25 18 0.50
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
TATTTTTATTTTATTTATTATTAA
Found at i:626439 original size:16 final size:15
Alignment explanation
Indices: 626420--626484 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
626410 ATTATATTAA
626420 TATTATTTATTTTATT
1 TATTATTTATTTT-TT
*
626436 TATTATTAATTTTTT
1 TATTATTTATTTTTT
626451 TATTTATTT-TGTGTTTT
1 TA-TTATTTAT-T-TTTT
*
626468 T-TTATTT-TTGTTT
1 TATTATTTATTTTTT
626481 TATT
1 TATT
626485 TTCAAGCCCG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 4 0.10
14 3 0.07
15 12 0.29
16 18 0.43
17 5 0.12
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (15 bp):
TATTATTTATTTTTT
Found at i:626451 original size:19 final size:19
Alignment explanation
Indices: 626405--626458 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
626395 TTATTTTTGT
* *
626405 TTTATATTATATTAATATTA
1 TTTATTTTAT-TTATTATTA
626425 TTTATTTTATTTATTATTAA
1 TTTATTTTATTTATTATT-A
626445 TTT-TTTTATTTATT
1 TTTATTTTATTTATT
626459 TTGTGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTTTATTTATTATTA
Found at i:626471 original size:15 final size:15
Alignment explanation
Indices: 626394--626485 Score: 68
Period size: 15 Copynumber: 6.2 Consensus size: 15
626384 AAAAATGATT
626394 TTTATTTTTGTTTTA
1 TTTATTTTTGTTTTA
* ** *
626409 TATTATATTAATATTA
1 T-TTATTTTTGTTTTA
626425 TTTATTTTAT-TTATTA
1 TTTATTTT-TGTT-TTA
*
626441 -TTA-ATTT-TTTTA
1 TTTATTTTTGTTTTA
626453 TTTATTTTGTGTTTT-
1 TTTATTTT-TGTTTTA
626468 TTTATTTTTGTTTTA
1 TTTATTTTTGTTTTA
626483 TTT
1 TTT
626486 TCAAGCCCGA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
12 3 0.05
13 6 0.10
14 10 0.17
15 23 0.38
16 18 0.30
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTATTTTTGTTTTA
Found at i:626486 original size:19 final size:19
Alignment explanation
Indices: 626422--626486 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
626412 TATATTAATA
*
626422 TTATTTATTTTATTTATTAT
1 TTATTT-TTTTATTTATTTT
*
626442 TAATTTTTTTATTTATTTT
1 TTATTTTTTTATTTATTTT
* *
626461 GTGTTTTTTTATTT-TTGTT
1 TTATTTTTTTATTTATT-TT
626480 TTATTTT
1 TTATTTT
626487 CAAGCCCGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 2 0.05
19 30 0.81
20 5 0.14
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (19 bp):
TTATTTTTTTATTTATTTT
Found at i:630451 original size:40 final size:40
Alignment explanation
Indices: 630367--630500 Score: 202
Period size: 40 Copynumber: 3.4 Consensus size: 40
630357 TAACCAATAA
*
630367 ACCATATACACCGTAGTGC--TACACA-AAGGTCGTGCCC
1 ACCATATACACCGAAGTGCATTACACATAAGGTCGTGCCC
*
630404 ACCATATACACCGAAGTGCATTACACATAAGCTCGTGCCC
1 ACCATATACACCGAAGTGCATTACACATAAGGTCGTGCCC
* *
630444 ACCATATACACCGAAGTGTATTACACATAAGGTCATGCCC
1 ACCATATACACCGAAGTGCATTACACATAAGGTCGTGCCC
*
630484 ACCATATACACTGAAGT
1 ACCATATACACCGAAGT
630501 TTATTTTAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
37 18 0.20
39 6 0.07
40 64 0.73
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.21
Consensus pattern (40 bp):
ACCATATACACCGAAGTGCATTACACATAAGGTCGTGCCC
Found at i:637915 original size:40 final size:40
Alignment explanation
Indices: 637795--637916 Score: 190
Period size: 40 Copynumber: 3.0 Consensus size: 40
637785 CACCATAGTG
* *
637795 TTACACATAAGGTCATGCCCACCATATACACCGAAATGCA
1 TTACACATAAGGTCGTGCCCACCATATACACCGAAATGTA
* * *
637835 TTACACATGAGGTTGTGCCCACCATATACACCGAAGTGTA
1 TTACACATAAGGTCGTGCCCACCATATACACCGAAATGTA
*
637875 TTACACATAAGGTCGTGCCCACCATATACACCGAATTGTA
1 TTACACATAAGGTCGTGCCCACCATATACACCGAAATGTA
637915 TT
1 TT
637917 TTAAACCTGT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
TTACACATAAGGTCGTGCCCACCATATACACCGAAATGTA
Found at i:640569 original size:40 final size:40
Alignment explanation
Indices: 640452--640573 Score: 172
Period size: 40 Copynumber: 3.0 Consensus size: 40
640442 ACCGTAGTGC
**
640452 TACACATAAGGTCGTGTCCCACCATATACACCGAAGTACAT
1 TACACATAAGGTCGTG-CCCACCATATACACCGAAGTGTAT
* * * * *
640493 TACACATATGGTTGTTCCCACAATATACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
640533 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
640573 T
1 T
640574 TTAAACCTGC
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 56 0.81
41 13 0.19
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:643143 original size:84 final size:84
Alignment explanation
Indices: 643034--643189 Score: 258
Period size: 84 Copynumber: 1.9 Consensus size: 84
643024 ACAATAAAGC
* * *
643034 TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGATTTATGGATAAGATTCAGCTAGCTT
1 TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGGATTTATGGATAAGATTCAGCTAGCCT
643099 GATAAAGGTGATTATAATA
66 GATAAAGGTGATTATAATA
* * *
643118 TTGAGTTGTCCCTCTAGAGCAATTGGTTAATCACCCCGGCTTTATGGATAAGATTTAGCTAGCCT
1 TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGGATTTATGGATAAGATTCAGCTAGCCT
643183 GATAAAG
66 GATAAAG
643190 ACAAATTACA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (84 bp):
TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGGATTTATGGATAAGATTCAGCTAGCCT
GATAAAGGTGATTATAATA
Found at i:644610 original size:87 final size:85
Alignment explanation
Indices: 644353--644658 Score: 425
Period size: 85 Copynumber: 3.6 Consensus size: 85
644343 TAGAGGAAAA
* * * * *
644353 TTACAACATAGCTCAAGGCGAAAAGGGCTATATGTCAACAAAAACCTTCGAGTTCGATTATATTT
1 TTACAGCATAACTCAAGGCGAAAAGGGCTATATGACAACAAAAACCTTCGAGTTCGATTACATTC
644418 AGCTCAAGGGCATATCAAAT
66 AGCTCAAGGGCATATCAAAT
*
644438 TTATAGCATAACTCAAGGCGAAAAGGGCTATAT-ATCAACAAAAACCTTCGAGTTCGATTACATT
1 TTACAGCATAACTCAAGGCGAAAAGGGCTATATGA-CAACAAAAACCTTCGAGTTCGATTACATT
*
644502 CAACTCAAGGGCATATCAAAT
65 CAGCTCAAGGGCATATCAAAT
* * *
644523 TTACAGCATAACTCAACGCGAGAAGGGCTATCTGACAACAAAAAAACCTTCGAGTTCGATTACAT
1 TTACAGCATAACTCAAGGCGAAAAGGGCTATATGACAAC--AAAAACCTTCGAGTTCGATTACAT
644588 TCAGCTCAAGGGCATATCAAAT
64 TCAGCTCAAGGGCATATCAAAT
* * * ** * *
644610 TTACAGCATAGCTCAAGGAGAGAATAGCTATCTGTCAACAAAAACCTTC
1 TTACAGCATAACTCAAGGCGAAAAGGGCTATATGACAACAAAAACCTTC
644659 AAGTGCATAT
Statistics
Matches: 199, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
85 120 0.60
86 1 0.01
87 78 0.39
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.24
Consensus pattern (85 bp):
TTACAGCATAACTCAAGGCGAAAAGGGCTATATGACAACAAAAACCTTCGAGTTCGATTACATTC
AGCTCAAGGGCATATCAAAT
Found at i:644697 original size:64 final size:64
Alignment explanation
Indices: 644593--644722 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 64
644583 TACATTCAGC
*
644593 TCAAGGGCATATCAAATTTACAGCATAGCTCAAGGAGAGAATAGCTATCTGTCAACAAAAACCT
1 TCAAGGGCATATCAAATTTACAGCATAGCTCAAGGAGAGAAGAGCTATCTGTCAACAAAAACCT
* * * *
644657 TCAAGTGCATATCAAATTTACAGCATAGGTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCT
1 TCAAGGGCATATCAAATTTACAGCATAGCTCAAGGAGAGAAGAGCTATCTGTCAACAAAAACCT
644721 TC
1 TC
644723 GAGTTTGATT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (64 bp):
TCAAGGGCATATCAAATTTACAGCATAGCTCAAGGAGAGAAGAGCTATCTGTCAACAAAAACCT
Found at i:644789 original size:149 final size:150
Alignment explanation
Indices: 644506--644796 Score: 451
Period size: 149 Copynumber: 1.9 Consensus size: 150
644496 TACATTCAAC
644506 TCAAGGGCATATCAAATTTACAGCATAACTCAACGCGAGAAGGGCTATCTGACAACAAAAAAACC
1 TCAAGGGCATATCAAATTTACAGCATAACTCAACGCGAGAAGGGCTATCTGACAAC-AAAAAACC
*
644571 TTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGAGAGAATA
65 TTCGAGTTCGATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGAGAGAAGA
644636 GCTATCTGTCAACAAAAACCT
130 GCTATCTGTCAACAAAAACCT
* ** * *
644657 TCAAGTGCATATCAAATTTACAGCATAGGTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAAACCT
1 TCAAGGGCATATCAAATTTACAGCATAACTCAACGCGAGAAGGGCTATCTGACAACAAAAAACCT
* * * * *
644721 TCGAGTTTGATTCCATTCAGCTCAAGGGCATATCAAGTTTATAGCATAGCTCAAGGTA-AGAAGG
66 TCGAGTTCGATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGG-AGAGAAGA
644785 GCTATCTGTCAA
130 GCTATCTGTCAA
644797 TAAAGACTTT
Statistics
Matches: 128, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
149 76 0.59
150 1 0.01
151 51 0.40
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (150 bp):
TCAAGGGCATATCAAATTTACAGCATAACTCAACGCGAGAAGGGCTATCTGACAACAAAAAACCT
TCGAGTTCGATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGAGAGAAGAG
CTATCTGTCAACAAAAACCT
Found at i:644841 original size:85 final size:85
Alignment explanation
Indices: 644657--644822 Score: 242
Period size: 85 Copynumber: 2.0 Consensus size: 85
644647 ACAAAAACCT
* * *
644657 TCAAGTGCATATCAAATTTACAGCATAGGTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTT
1 TCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAACCTT
*
644722 CGAGTTTGATTCCATTCAGC
66 CGAGTTCGATTCCATTCAGC
* * * * * *
644742 TCAAGGGCATATCAAGTTTATAGCATAGCTCAAGGTAAGAAGGGCTATCTGTCAATAAAGACTTT
1 TCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAACCTT
644807 CGAGTTCGATTCCATT
66 CGAGTTCGATTCCATT
644823 ATGCTCGATG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (85 bp):
TCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAACCTT
CGAGTTCGATTCCATTCAGC
Found at i:645461 original size:39 final size:38
Alignment explanation
Indices: 645418--645802 Score: 221
Period size: 38 Copynumber: 10.2 Consensus size: 38
645408 TAGTATATAT
* *
645418 TAATATAGTAGAGTTTTTGAAAATATTTTTGAAAAAATA
1 TAATATA-TATAGTTTTTGAAAACATTTTTGAAAAAATA
* **
645457 T-A-ATATATAGTTTTTTAGAAAACGGTTTTTGAAAGCATA
1 TAATATATATAG-TTTTT-GAAAAC-ATTTTTGAAAAAATA
* *
645496 T-A-ATATATACTTTTT--AATCGATTTTTG-----A-A
1 TAATATATATAGTTTTTGAAAAC-ATTTTTGAAAAAATA
* * * *
645525 T-ATATATATAG-CTTTGAAAATGATTTTCGAAAATATA
1 TAATATATATAGTTTTTGAAAA-CATTTTTGAAAAAATA
*
645562 T-ATATTATATAG-TTTTG-AAA-A--TTTGAAAACATA
1 TAATA-TATATAGTTTTTGAAAACATTTTTGAAAAAATA
*
645595 TATATAATATATAATTTTTGAAAACATTTTTGAAAATATATA
1 TA-AT-ATATATAGTTTTTGAAAACATTTTTGAAAA-A-ATA
645637 TATATATATTATA-TAGTTTTGAAAACA-TTTTGAAAAAAATA
1 TA-ATATA-TATAGT--TTTTGAAAACATTTTTG-AAAAAATA
*
645678 TATATAATATATAGTTTTTGAAAACATTTTTGAAAATATA
1 TA-AT-ATATATAGTTTTTGAAAACATTTTTGAAAAAATA
645718 T-ATAATATATAGTTTTTGAAAACA-TTTTG--AAAATA
1 TAAT-ATATATAGTTTTTGAAAACATTTTTGAAAAAATA
* *
645753 -AATATATTATATTGTTTTGAAAACAATTTTTTAAAAATATA
1 TAATATA-TATAGT-TTTTGAAAAC-ATTTTTGAAAAA-ATA
*
645794 TATTATATA
1 TAATATATA
645803 GCTTTGAAAA
Statistics
Matches: 283, Mismatches: 23, Indels: 78
0.74 0.06 0.20
Matches are distributed among these distances:
29 6 0.02
30 8 0.03
31 8 0.03
33 11 0.04
34 3 0.01
35 31 0.11
36 21 0.07
37 25 0.09
38 50 0.18
39 22 0.08
40 30 0.11
41 26 0.09
42 27 0.10
43 15 0.05
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (38 bp):
TAATATATATAGTTTTTGAAAACATTTTTGAAAAAATA
Found at i:645472 original size:37 final size:38
Alignment explanation
Indices: 645431--645534 Score: 67
Period size: 39 Copynumber: 2.8 Consensus size: 38
645421 TATAGTAGAG
*
645431 TTTTTGAAAATATTTTTGAAAA-A-ATATAATATATAGT
1 TTTTTGAAAACATTTTTGAAAATATATATAATATATA-T
* ** *
645468 TTTTTAGAAAACGGTTTTTG-AAA-GCATATAATATATAC
1 TTTTT-GAAAAC-ATTTTTGAAAATATATATAATATATAT
* *
645506 TTTTT--AATCGATTTTTGAATATATATATA
1 TTTTTGAAAAC-ATTTTTGAAAATATATATA
645535 GCTTTGAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
35 10 0.19
36 2 0.04
37 10 0.19
38 13 0.25
39 18 0.34
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (38 bp):
TTTTTGAAAACATTTTTGAAAATATATATAATATATAT
Found at i:645579 original size:38 final size:36
Alignment explanation
Indices: 645524--645812 Score: 273
Period size: 37 Copynumber: 7.6 Consensus size: 36
645514 CGATTTTTGA
* *
645524 ATATA-TATATAGCTTTGAAAATGATTTTCGAAAATAT
1 ATATATTATATAGTTTTGAAAA-CATTTT-GAAAATAT
645561 ATATATTATATAGTTTTG-AAA-A-TTTGAAAACATAT
1 ATATATTATATAGTTTTGAAAACATTTTG-AAA-ATAT
* *
645596 ATATAATATATAATTTTTGAAAACATTTTTGAAAATATATATAT
1 ATATATTATAT-AGTTTTGAAAACA-TTTTG---A-A-A-ATAT
645640 ATATATTATATAGTTTTGAAAACATTTTGAAAAAAATAT
1 ATATATTATATAGTTTTGAAAACATTTTG---AAAATAT
*
645679 ATATAATATATAGTTTTTGAAAACATTTTTGAAAATAT
1 ATATATTATATAG-TTTTGAAAACA-TTTTGAAAATAT
* *
645717 ATATAATATATAGTTTTTGAAAACATTTTGAAAATAA
1 ATATATTATATAG-TTTTGAAAACATTTTGAAAATAT
* *
645754 ATATATTATATTGTTTTGAAAACAATTTTTTAAAA-AT
1 ATATATTATATAGTTTTGAAAAC-A-TTTTGAAAATAT
*
645791 ATATATTATATAGCTTTGAAAA
1 ATATATTATATAGTTTTGAAAA
645813 AAATTAAACA
Statistics
Matches: 222, Mismatches: 14, Indels: 32
0.83 0.05 0.12
Matches are distributed among these distances:
33 1 0.00
34 6 0.03
35 15 0.07
36 16 0.07
37 55 0.25
38 52 0.23
39 16 0.07
40 16 0.07
41 6 0.03
42 11 0.05
43 13 0.06
44 15 0.07
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (36 bp):
ATATATTATATAGTTTTGAAAACATTTTGAAAATAT
Found at i:645864 original size:5 final size:5
Alignment explanation
Indices: 645850--645913 Score: 71
Period size: 5 Copynumber: 12.8 Consensus size: 5
645840 TAGTTAGTTA
*
645850 TTTAT ATTAT TTTAT TTTA- TTTA- TTTAT TTT-T TTTAT TTTACT TATTCAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T T-TT-AT
645900 TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTA
645914 GGTTTTAGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 12 0.23
5 31 0.60
6 4 0.08
7 4 0.08
8 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:645867 original size:27 final size:27
Alignment explanation
Indices: 645837--645890 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
645827 ATAATAGTTT
645837 TTTTAGTTAGTTATTTATATTATTTTA
1 TTTTAGTTAGTTATTTATATTATTTTA
* * * *
645864 TTTTATTTATTTATTTTTTTTATTTTA
1 TTTTAGTTAGTTATTTATATTATTTTA
645891 CTTATTCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (27 bp):
TTTTAGTTAGTTATTTATATTATTTTA
Found at i:645879 original size:18 final size:18
Alignment explanation
Indices: 645850--645911 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
645840 TAGTTAGTTA
645850 TTTATATTATTTTATTTTA-
1 TTTAT-TTA-TTTATTTTAT
*
645869 TTTATTTATTTTTTTTAT
1 TTTATTTATTTATTTTAT
* *
645887 TTTACTTATTCATTTTAT
1 TTTATTTATTTATTTTAT
645905 TTTATTT
1 TTTATTT
645912 TAGGTTTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.22
18 24 0.65
19 5 0.14
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTATTTATTTTAT
Found at i:647037 original size:15 final size:15
Alignment explanation
Indices: 647017--647050 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
647007 TTTCCGTTAA
647017 TTTTTATTTTTATTT-
1 TTTTTA-TTTTATTTC
647032 TTTTTATTTTATTTC
1 TTTTTATTTTATTTC
647047 TTTT
1 TTTT
647051 GAAACTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTATTTTATTTC
Found at i:657257 original size:2 final size:2
Alignment explanation
Indices: 657252--657283 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
657242 TCTCTGAAAC
657252 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
657284 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:660449 original size:36 final size:36
Alignment explanation
Indices: 660344--660451 Score: 180
Period size: 36 Copynumber: 3.0 Consensus size: 36
660334 TGATTGAGAC
* *
660344 TGCAAATGCTGATCACGTCTGCGTCTTTCTTGACTG
1 TGCAAATGCTGATCACGTCTGCCTCTTTCTTGATTG
*
660380 TGCAAATGCTGGTCACGTCTGCCTCTTTCTTGATTG
1 TGCAAATGCTGATCACGTCTGCCTCTTTCTTGATTG
*
660416 TGCAAATGCTGATCACGTTTGCCTCTTTCTTGATTG
1 TGCAAATGCTGATCACGTCTGCCTCTTTCTTGATTG
660452 GGTTGCTCCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (36 bp):
TGCAAATGCTGATCACGTCTGCCTCTTTCTTGATTG
Found at i:667314 original size:18 final size:19
Alignment explanation
Indices: 667291--667369 Score: 85
Period size: 18 Copynumber: 4.2 Consensus size: 19
667281 ATTTTACTTA
667291 ATTATTATTA-AAATTATT
1 ATTATTATTATAAATTATT
667309 ATTATTATTATAAA-TATT
1 ATTATTATTATAAATTATT
*
667327 ATTATTCTATTATATA-TATT
1 ATTA-T-TATTATAAATTATT
*
667347 A-TATTATTATTAAATAATT
1 ATTATTATTA-TAAATTATT
667366 ATTA
1 ATTA
667370 CAAGCCAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
17 5 0.10
18 22 0.42
19 10 0.19
20 15 0.29
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATTATTATAAATTATT
Found at i:667369 original size:3 final size:3
Alignment explanation
Indices: 667291--667358 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
667281 ATTTTACTTA
** * * *
667291 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT -CT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
667338 A-T ATAT ATT A-T ATT ATT ATT A
1 ATT AT-T ATT ATT ATT ATT ATT A
667359 AATAATTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 5 0.10
3 43 0.84
4 3 0.06
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:667474 original size:15 final size:14
Alignment explanation
Indices: 667454--667483 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
667444 GTTTCACACT
667454 TCTCAGCTCCAGCCG
1 TCTCAGCTCCA-CCG
667469 TCTCAGCTCCACCG
1 TCTCAGCTCCACCG
667483 T
1 T
667484 TGGATCTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.13, C:0.47, G:0.17, T:0.23
Consensus pattern (14 bp):
TCTCAGCTCCACCG
Found at i:668031 original size:27 final size:27
Alignment explanation
Indices: 667993--668051 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
667983 GAGTTATTGC
667993 TTTTATGGTTATGAGCAAGGAATCAAG
1 TTTTATGGTTATGAGCAAGGAATCAAG
668020 TTTTATGGTTATGAGCAAGGAATCAAG
1 TTTTATGGTTATGAGCAAGGAATCAAG
668047 TTTTA
1 TTTTA
668052 ACCTTGAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (27 bp):
TTTTATGGTTATGAGCAAGGAATCAAG
Found at i:671625 original size:114 final size:114
Alignment explanation
Indices: 671437--671653 Score: 346
Period size: 114 Copynumber: 1.9 Consensus size: 114
671427 CACGTTCTCG
* *
671437 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGATTC
* *
671502 GGTATGAACCCCA-AACCCAATCATTAGATTTGAAAGATAAATTTGCTCA
66 GGTAGGAACCCCAGAA-CCAATCATTAGAATTGAAAGATAAATTTGCTCA
* *
671551 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATTTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGATTC
* *
671616 GGTAGGAACCCCAGAACTAATCATTGGAATTGAAAGAT
66 GGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGAT
671654 GAACTGCATG
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 92 0.98
115 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGATTC
GGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATAAATTTGCTCA
Found at i:674216 original size:22 final size:22
Alignment explanation
Indices: 674190--674266 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
674180 ATCTACACTC
674190 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
674212 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
674234 TTTAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
674256 TTCAAAGATGA
1 TTCAAAGATGA
674267 AAGCTTTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:675232 original size:76 final size:76
Alignment explanation
Indices: 674941--675198 Score: 489
Period size: 76 Copynumber: 3.4 Consensus size: 76
674931 CTATTTTCCA
*
674941 CATCTGTAAGTCCTACAGTGCATGATGTTTACAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
675006 AGCCTTAGGGT
66 AGCCTTAGGGT
675017 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
675082 AGCCTTAGGGT
66 AGCCTTAGGGT
675093 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
675158 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
675169 CATCTGTAAGACCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
675199 TTAAGACCTC
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 179 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:675370 original size:12 final size:12
Alignment explanation
Indices: 675353--675445 Score: 81
Period size: 12 Copynumber: 8.0 Consensus size: 12
675343 TAATTTTACT
675353 AAATTATTATTA
1 AAATTATTATTA
675365 AAATTATTATTA
1 AAATTATTATTA
675377 AAATTATTATT-
1 AAATTATTATTA
675388 --ATTATTA-TA
1 AAATTATTATTA
675397 AATATTATTATT-
1 AA-ATTATTATTA
* *
675409 ATATTATATATATT
1 AAATTAT-TAT-TA
*
675423 ATATTATTATT-
1 AAATTATTATTA
*
675434 AAATAATTATTA
1 AAATTATTATTA
675446 CAAGCCAAGA
Statistics
Matches: 69, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
8 1 0.01
9 7 0.10
11 14 0.20
12 35 0.51
13 5 0.07
14 7 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATTATTATTA
Found at i:675402 original size:18 final size:18
Alignment explanation
Indices: 675367--675445 Score: 90
Period size: 18 Copynumber: 4.2 Consensus size: 18
675357 TATTATTAAA
675367 ATTATTATTA-AAATTATT
1 ATTATTATTATAAA-TATT
675385 ATTATTATTATAAATATT
1 ATTATTATTATAAATATT
*
675403 ATTATTATATTATATATATT
1 ATTA-T-TATTATAAATATT
675423 A-TATTATTATTAAATAATT
1 ATTATTATTA-TAAAT-ATT
675442 ATTA
1 ATTA
675446 CAAGCCAAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.09
18 23 0.43
19 10 0.19
20 15 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATTATTATAAATATT
Found at i:675445 original size:3 final size:3
Alignment explanation
Indices: 675355--675434 Score: 76
Period size: 3 Copynumber: 27.3 Consensus size: 3
675345 ATTTTACTAA
** ** * *
675355 ATT ATT ATT AAA ATT ATT ATT AAA ATT ATT ATT ATT ATT ATA AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
675403 ATT ATT A-T ATT A-T ATAT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT A
675435 AATAATTATT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
2 6 0.10
3 52 0.85
4 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Done.