Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_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: 3141433
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:2815301 original size:19 final size:19
Alignment explanation
Indices: 2815279--2815319 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2815269 AAAAATGTAT
2815279 ATATAAAACAA-AATAAGTA
1 ATATAAAACAATAATAA-TA
*
2815298 ATATAAAATAATAATAATA
1 ATATAAAACAATAATAATA
2815317 ATA
1 ATA
2815320 ATAATAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
ATATAAAACAATAATAATA
Found at i:2815312 original size:3 final size:3
Alignment explanation
Indices: 2815290--2815333 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
2815280 TATAAAACAA
2815290 AAT AAGT AAT -AT AA- AAT AAT AAT AAT AAT AAT AAT AAT ACAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
2815334 AAGAAAGGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 27 0.73
4 6 0.16
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2829879 original size:33 final size:34
Alignment explanation
Indices: 2829837--2829902 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
2829827 AGTTGACAAG
2829837 TTGGAAATTTCATCTTGGTTGGTGG-CAAACTTA
1 TTGGAAATTTCATCTTGGTTGGTGGCCAAACTTA
2829870 TTGGAAATTTCATCTTGGTTGGTGGCCAAACTT
1 TTGGAAATTTCATCTTGGTTGGTGGCCAAACTT
2829903 TGAACATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 25 0.78
34 7 0.22
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (34 bp):
TTGGAAATTTCATCTTGGTTGGTGGCCAAACTTA
Found at i:2837585 original size:21 final size:21
Alignment explanation
Indices: 2837560--2837611 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
2837550 TAATTATGTT
2837560 TGAATGTGAACATGTAATATG
1 TGAATGTGAACATGTAATATG
2837581 TGAATGTGAACATGTAATATG
1 TGAATGTGAACATGTAATATG
*
2837602 TGAATATGAA
1 TGAATGTGAA
2837612 ATGCCCTACG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (21 bp):
TGAATGTGAACATGTAATATG
Found at i:2838635 original size:558 final size:558
Alignment explanation
Indices: 2837581--2838640 Score: 1958
Period size: 558 Copynumber: 1.9 Consensus size: 558
2837571 ATGTAATATG
2837581 TGAATGTGAACATGTAATATGTGAATATGAAATGCCCTACGTGTAAATAATCTACGAGAATGTTC
1 TGAATGTGAACATGTAATATGTGAATATGAAATGCCCTACGTGTAAATAATCTACGAGAATGTTC
*
2837646 TATATGCAATTAAGATACACTTTAAATAGTGAAACTTAAAATAATTATAAGTTAAAGCCCAATGG
66 TATATGCAATTAAGATACACTTTAAATAGTGAAACTTAAAATAATTATAAGTTAAAGCCCAATGA
*
2837711 GTATATGTGAGAATTAGGGGTATAGTTGACATGCCAAGAGTAGAGGGTTCTACGCGGTTCTTCAG
131 GTATATGTGAGAATTAGGGGTATAGTTGACATGCCAAGAGTAGAGGGTTCTACGCGGTCCTTCAG
*
2837776 GATAACTGTTGAGTTAATCGATCGATGGAAATAGCCAAGAGGGGGGTGAATTGGCAATAAAAAAT
196 GACAACTGTTGAGTTAATCGATCGATGGAAATAGCCAAGAGGGGGGTGAATTGGCAATAAAAAAT
* * *
2837841 TTTAGTGGAAGCTTTTGCAGAAAATTGAAAATATTTGCACAACGATTTATAGTGGTTCGACTTTC
261 TTTAGTAGAAGCTTTTGCAGAAAATTGAAAAAATTTGCACAACGATTTAGAGTGGTTCGACTTTC
*
2837906 TCAACCAAAGTCTACGTCCACTACCTTAGCTATTCACACTAATGATTTTCCAACAAATTCACTAA
326 TCAACCAAAGTCTACGTCCACTACCTTAGCTATTCACACTAAGGATTTTCCAACAAATTCACTAA
2837971 TTTGTTCTTTCTTTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCAAAATTA
391 TTTGTTCTTTCTTTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCAAAATTA
2838036 TTGAGCACACTCTTTTTCAAAGAGAAATACACAAATTTGCAAACTTATATTATGTTTTTTTATTA
456 TTGAGCACACTCTTTTTCAAAGAGAAATACACAAATTTGCAAACTTATATTATGTTTTTTTATTA
2838101 AAGTATATTTTCAAGTAAGTTCTATTATTAATTGTGCT
521 AAGTATATTTTCAAGTAAGTTCTATTATTAATTGTGCT
* *
2838139 TGAATGTGAACATGTAATATGTGAATATGAAATGCCCTACGTGTAAATAATCTACTATAATGTTC
1 TGAATGTGAACATGTAATATGTGAATATGAAATGCCCTACGTGTAAATAATCTACGAGAATGTTC
2838204 TATATGCAATTAAGATACACTTTAAATAGTGAAACTTAAAATAATTATAAGTTAAAGCCCAATGA
66 TATATGCAATTAAGATACACTTTAAATAGTGAAACTTAAAATAATTATAAGTTAAAGCCCAATGA
* *
2838269 GTATATGTGAGAATTAGGGGTATAGTTGACATGCCAAGAGTCGAGGGTTCTACGCGGTCCTTCGG
131 GTATATGTGAGAATTAGGGGTATAGTTGACATGCCAAGAGTAGAGGGTTCTACGCGGTCCTTCAG
*
2838334 GACAACTGTTGAGTTAATCGATCGATGGAAATGGCCAAGAGGGGGGTGAATTGGCAATAAAAAAT
196 GACAACTGTTGAGTTAATCGATCGATGGAAATAGCCAAGAGGGGGGTGAATTGGCAATAAAAAAT
* * *
2838399 TTTGGTAGAAGCTTTTGTAGAAAATTGAAAAAATTTGCACAGCGATTTAGAGTGGTTCGACTTTC
261 TTTAGTAGAAGCTTTTGCAGAAAATTGAAAAAATTTGCACAACGATTTAGAGTGGTTCGACTTTC
*
2838464 TCAACCAAAGTCTACGTCCACTACCTTAGCTATTCACACTAAGGATTTTTCAACAAATTCACTAA
326 TCAACCAAAGTCTACGTCCACTACCTTAGCTATTCACACTAAGGATTTTCCAACAAATTCACTAA
* *
2838529 TTTGTTCTTTCTTTTAAGGACAAAGAGTAACCTTACAACTCCCTCAATAATTATACCCCAAATTA
391 TTTGTTCTTTCTTTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCAAAATTA
2838594 TTGAGCACACTCTTTTTCAAAGAGAAATACACAAATTTGCAAACTTA
456 TTGAGCACACTCTTTTTCAAAGAGAAATACACAAATTTGCAAACTTA
2838641 CAAGGAAAAC
Statistics
Matches: 484, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
558 484 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (558 bp):
TGAATGTGAACATGTAATATGTGAATATGAAATGCCCTACGTGTAAATAATCTACGAGAATGTTC
TATATGCAATTAAGATACACTTTAAATAGTGAAACTTAAAATAATTATAAGTTAAAGCCCAATGA
GTATATGTGAGAATTAGGGGTATAGTTGACATGCCAAGAGTAGAGGGTTCTACGCGGTCCTTCAG
GACAACTGTTGAGTTAATCGATCGATGGAAATAGCCAAGAGGGGGGTGAATTGGCAATAAAAAAT
TTTAGTAGAAGCTTTTGCAGAAAATTGAAAAAATTTGCACAACGATTTAGAGTGGTTCGACTTTC
TCAACCAAAGTCTACGTCCACTACCTTAGCTATTCACACTAAGGATTTTCCAACAAATTCACTAA
TTTGTTCTTTCTTTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCAAAATTA
TTGAGCACACTCTTTTTCAAAGAGAAATACACAAATTTGCAAACTTATATTATGTTTTTTTATTA
AAGTATATTTTCAAGTAAGTTCTATTATTAATTGTGCT
Found at i:2839498 original size:24 final size:24
Alignment explanation
Indices: 2839466--2839525 Score: 102
Period size: 24 Copynumber: 2.4 Consensus size: 24
2839456 ACTTCTCCCC
2839466 ACTTCTCCCCTTTAAAACACTTTA
1 ACTTCTCCCCTTTAAAACACTTTA
2839490 ACTTCTCCCCTTTAAAACACTTTA
1 ACTTCTCCCCTTTAAAACACTTTA
2839514 ACATTTCTCCCC
1 AC--TTCTCCCC
2839526 CTTTTTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 26 0.76
26 8 0.24
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (24 bp):
ACTTCTCCCCTTTAAAACACTTTA
Found at i:2839676 original size:13 final size:13
Alignment explanation
Indices: 2839658--2839682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2839648 AGCCATTAGT
2839658 TTCATAATCAATA
1 TTCATAATCAATA
2839671 TTCATAATCAAT
1 TTCATAATCAAT
2839683 GTGACATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
TTCATAATCAATA
Found at i:2847223 original size:24 final size:24
Alignment explanation
Indices: 2847186--2847253 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
2847176 ATATTTATGT
* *
2847186 GTGGTCCTTTGGGACAAATTCTAC
1 GTGGTCATTCGGGACAAATTCTAC
2847210 GTGGTCATTCGGGACAAATTCTAC
1 GTGGTCATTCGGGACAAATTCTAC
2847234 GTGG-CACTTCGGTG-CAAATT
1 GTGGTCA-TTCGG-GACAAATT
2847254 ATATGAGCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 37 0.93
25 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (24 bp):
GTGGTCATTCGGGACAAATTCTAC
Found at i:2868888 original size:31 final size:31
Alignment explanation
Indices: 2868840--2868910 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
2868830 AACTAACCGG
*
2868840 GAAATGTACTGCTGTCGTAAATTTATTTACGA
1 GAAATGAAC-GCTGTCGTAAATTTATTTACGA
*
2868872 GAAGTGAACGCTGTCGTAAATTTATTTACGA
1 GAAATGAACGCTGTCGTAAATTTATTTACGA
2868903 GAAATGAA
1 GAAATGAA
2868911 ATGGTTTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 29 0.81
32 7 0.19
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (31 bp):
GAAATGAACGCTGTCGTAAATTTATTTACGA
Found at i:2869277 original size:2 final size:2
Alignment explanation
Indices: 2869270--2869325 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2869260 TGTTTAACAA
2869270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2869312 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2869326 TGTTGCGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2875746 original size:2 final size:2
Alignment explanation
Indices: 2875735--2875779 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
2875725 TAAATACTTA
2875735 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2875776 AT AT
1 AT AT
2875780 TAGCTTTAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2877263 original size:6 final size:6
Alignment explanation
Indices: 2877252--2877285 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
2877242 TGTTTGAATA
2877252 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
2877286 CAAATTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:2884292 original size:3 final size:3
Alignment explanation
Indices: 2884286--2884310 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2884276 TCAAAAAAAA
2884286 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
2884311 TTAATACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2885807 original size:21 final size:18
Alignment explanation
Indices: 2885773--2885829 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 18
2885763 CTTGTACTTA
*
2885773 TTTTTTTTTATTTTATGTT
1 TTTTTTTTTGTTTTAT-TT
2885792 GTTTTTTTATTGTTTTCATTT
1 -TTTTTTT-TTGTTTT-ATTT
2885813 TTTTATTTGTTGTTTTA
1 TTTT-TTT-TTGTTTTA
2885830 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 12 0.38
21 18 0.56
22 2 0.06
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.79
Consensus pattern (18 bp):
TTTTTTTTTGTTTTATTT
Found at i:2885837 original size:21 final size:21
Alignment explanation
Indices: 2885793--2885838 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2885783 TTTTATGTTG
* *
2885793 TTTT-TTTATTGTTTTCATTT
1 TTTTATTTATTGTTTTAATTA
*
2885813 TTTTATTTGTTGTTTTAATTA
1 TTTTATTTATTGTTTTAATTA
2885834 TTTTA
1 TTTTA
2885839 ATTAAGCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (21 bp):
TTTTATTTATTGTTTTAATTA
Found at i:2887820 original size:2 final size:2
Alignment explanation
Indices: 2887813--2887855 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2887803 AATAATAATA
*
2887813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2887855 A
1 A
2887856 AATCCATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2888414 original size:16 final size:16
Alignment explanation
Indices: 2888379--2888414 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2888369 ATATAATATT
*
2888379 AAAACTTGAACTCGAA
1 AAAACTTGAACTCAAA
2888395 AAAACTTGAACTCAAA
1 AAAACTTGAACTCAAA
2888411 AAAA
1 AAAA
2888415 ATTTAGAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (16 bp):
AAAACTTGAACTCAAA
Found at i:2890933 original size:32 final size:32
Alignment explanation
Indices: 2890897--2890961 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2890887 ATAGCTCCCA
2890897 ACACTTCTAGGATATTTAACCGTGGATTCTGT
1 ACACTTCTAGGATATTTAACCGTGGATTCTGT
* * *
2890929 ACACTTGTAGGATATTTTACTGTGGATTCTGT
1 ACACTTCTAGGATATTTAACCGTGGATTCTGT
2890961 A
1 A
2890962 GTCCATGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (32 bp):
ACACTTCTAGGATATTTAACCGTGGATTCTGT
Found at i:2891332 original size:14 final size:14
Alignment explanation
Indices: 2891313--2891345 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2891303 ACAGAGATGG
*
2891313 ATCCAAAAGCAGTT
1 ATCCAAAAGCAATT
2891327 ATCCAAAAGCAATT
1 ATCCAAAAGCAATT
2891341 ATCCA
1 ATCCA
2891346 GGGCTACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.21
Consensus pattern (14 bp):
ATCCAAAAGCAATT
Found at i:2904522 original size:41 final size:43
Alignment explanation
Indices: 2904470--2904569 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 43
2904460 CGCAAATCAG
* * * *
2904470 TTTCCAGATTCGCAACGCGA-TTCTGACTATCGCATTGC-GAT
1 TTTCCAAATTCGCAACGCGATTTCCGACTATCGCAATGCTGAA
***
2904511 TTTCCAAATTCGCGTTGCGATTTTCCGACTATCGCAATGCTGAA
1 TTTCCAAATTCGCAACGCGA-TTTCCGACTATCGCAATGCTGAA
2904555 TTT-CAAATTCGCAAC
1 TTTCCAAATTCGCAAC
2904570 AGGTTTTAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
41 16 0.35
43 25 0.54
44 5 0.11
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (43 bp):
TTTCCAAATTCGCAACGCGATTTCCGACTATCGCAATGCTGAA
Found at i:2905400 original size:24 final size:24
Alignment explanation
Indices: 2905368--2905421 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2905358 GTATTCAAAA
2905368 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2905392 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2905416 TTTGAT
1 TTTGAT
2905422 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2907699 original size:12 final size:12
Alignment explanation
Indices: 2907682--2907712 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2907672 CAAGCAAAAG
2907682 GCAATCAAAATC
1 GCAATCAAAATC
2907694 GCAATCAAAATC
1 GCAATCAAAATC
*
2907706 CCAATCA
1 GCAATCA
2907713 CAACCGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.29, G:0.06, T:0.16
Consensus pattern (12 bp):
GCAATCAAAATC
Found at i:2907915 original size:20 final size:20
Alignment explanation
Indices: 2907890--2908199 Score: 161
Period size: 20 Copynumber: 16.7 Consensus size: 20
2907880 CACATTCATT
*
2907890 TGACTATCGCAATGCGAATA
1 TGACTATCGCAACGCGAATA
*
2907910 TGACTATCGCAACGTGAATA
1 TGACTATCGCAACGCGAATA
* *
2907930 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* * *
2907950 TGAATATCGCAATG-G--GA
1 TGACTATCGCAACGCGAATA
* *
2907967 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
2907984 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
2908004 TGACTATCACAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
2908021 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
2908038 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
2908055 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
2908072 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * * *
2908092 TAAC-CT-GCAGAATTGCGAATT
1 TGACTATCGC--AA-CGCGAATA
*
2908113 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
2908130 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
2908146 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
2908166 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
2908186 TGACTATCGCAACG
1 TGACTATCGCAACG
2908200 AGAAAATCGC
Statistics
Matches: 225, Mismatches: 35, Indels: 60
0.70 0.11 0.19
Matches are distributed among these distances:
14 31 0.14
15 3 0.01
16 8 0.04
17 14 0.06
18 7 0.03
19 17 0.08
20 130 0.58
21 12 0.05
22 1 0.00
23 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:2907997 original size:54 final size:54
Alignment explanation
Indices: 2907915--2908051 Score: 211
Period size: 54 Copynumber: 2.5 Consensus size: 54
2907905 GAATATGACT
* * * * * *
2907915 ATCGCAACGTGAATATGACTATCGCAACGTGAATTTGAATATCGCAATGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCACAACGGGATA
*
2907969 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCACAACGGGATA
2908023 ATCGCAATGCGAAAATGACTATCGCAACG
1 ATCGCAATGCGAAAATGACTATCGCAACG
2908052 GGATAATCGC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCACAACGGGATA
Found at i:2908027 original size:34 final size:34
Alignment explanation
Indices: 2907989--2908232 Score: 186
Period size: 34 Copynumber: 6.9 Consensus size: 34
2907979 GAAAATGACT
* *
2907989 ATCGCAACGCGAATTTGACTATCACAACGGGATA
1 ATCGCAACGCGAATATGACTATCGCAACGGGATA
* *
2908023 ATCGCAATGCGAAAATGACTATCGCAACGGGATA
1 ATCGCAACGCGAATATGACTATCGCAACGGGATA
* * *
2908057 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTA
1 ATCGCAACGCGAATATGACTATCGCAACG-GGA--TA
* * * *
2908094 ACCTGCAGAATTGCGAATTTGACTATCGCAACGAGATA
1 ATC-GC--AA-CGCGAATATGACTATCGCAACGGGATA
*
2908132 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATATGACTATCGCAACG-G-----GATA
* * * *
2908171 ATCGCAACGGGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATATGACTATCGCAACGGGATA
* * *
2908205 ATCGCAAAGTGTAT-TGACTATCGCAACG
1 ATCGCAACGCGAATATGACTATCGCAACG
2908233 CGAATTGATG
Statistics
Matches: 173, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
33 28 0.16
34 77 0.45
35 4 0.02
37 6 0.03
38 6 0.03
39 15 0.09
40 17 0.10
41 20 0.12
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (34 bp):
ATCGCAACGCGAATATGACTATCGCAACGGGATA
Found at i:2908047 original size:74 final size:72
Alignment explanation
Indices: 2907890--2908049 Score: 171
Period size: 74 Copynumber: 2.2 Consensus size: 72
2907880 CACATTCATT
* * * * * *
2907890 TGACTATCGCAATGCGAATATGACTATCGCAACGTGAATATGACTATCGCAACGTGAATTTGAAT
1 TGACTATCGCAATGCGAAAATGACTATCGCAACGCGAATATGACTATCACAACGGGAAATCGAAT
* *
2907955 ATCGCAA
66 AGCGAAA
*
2907962 TGGGA-TAATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATAATC
1 T--GACT-ATCGCAATGCGAAAATGACTATCGCAACGCGAATATGACTATCACAACGGGA-AATC
2908026 GCAAT-GCGAAAA
62 G-AATAGCG-AAA
2908038 TGACTATCGCAA
1 TGACTATCGCAA
2908050 CGGGATAATC
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
72 1 0.01
73 1 0.01
74 58 0.81
75 6 0.08
76 6 0.08
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (72 bp):
TGACTATCGCAATGCGAAAATGACTATCGCAACGCGAATATGACTATCACAACGGGAAATCGAAT
AGCGAAA
Found at i:2908150 original size:33 final size:33
Alignment explanation
Indices: 2908106--2908232 Score: 119
Period size: 33 Copynumber: 3.6 Consensus size: 33
2908096 CTGCAGAATT
2908106 GCGAATTTGACTATCGCAACGAGATAATCGCAAC
1 GCGAA-TTGACTATCGCAACGAGATAATCGCAAC
* *
2908140 GCGAAATGACTATCGCAACGCGAATTTGATTATCGCAAC
1 GCGAATTGACTATCGCAA--CG-A---GATAATCGCAAC
* * *
2908179 GGGAATTTGACTATCGCAACGAGAAAATCGCAAA
1 GCGAA-TTGACTATCGCAACGAGATAATCGCAAC
* *
2908213 GTGTATTGACTATCGCAACG
1 GCGAATTGACTATCGCAACG
2908233 CGAATTGATG
Statistics
Matches: 77, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
33 27 0.35
34 17 0.22
35 2 0.03
36 1 0.01
37 1 0.01
38 2 0.03
39 15 0.19
40 12 0.16
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (33 bp):
GCGAATTGACTATCGCAACGAGATAATCGCAAC
Found at i:2908208 original size:73 final size:73
Alignment explanation
Indices: 2908038--2908238 Score: 246
Period size: 73 Copynumber: 2.7 Consensus size: 73
2908028 AATGCGAAAA
* *
2908038 TGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATCGCAACGCGAATTTAACCTGCAGA
1 TGACTATCGCAACGAGATAATCGCAAAGCG-AAATGACTATCGCAACGCGAATTTAACCTGCA-A
*
2908103 ATTGCGAATT
64 ATCGCGAATT
* *
2908113 TGACTATCGCAACGAGATAATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATC-GC-
1 TGACTATCGCAACGAGATAATCGCAAAGCGAAATGACTATCGCAACGCGAATTT-A--ACCTGCA
*
2908176 AA-CGGGAATT
63 AATCGCGAATT
* * * *
2908186 TGACTATCGCAACGAGAAAATCGCAAAGTGTATTGACTATCGCAACGCGAATT
1 TGACTATCGCAACGAGATAATCGCAAAGCGAAATGACTATCGCAACGCGAATT
2908239 GATGCAGATT
Statistics
Matches: 113, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
73 54 0.48
74 26 0.23
75 29 0.26
76 2 0.02
77 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (73 bp):
TGACTATCGCAACGAGATAATCGCAAAGCGAAATGACTATCGCAACGCGAATTTAACCTGCAAAT
CGCGAATT
Found at i:2908389 original size:30 final size:30
Alignment explanation
Indices: 2908349--2908412 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
2908339 AAACAAGCAT
*
2908349 AAATAGGAATTATTTACACATCAATTAAAC
1 AAATAAGAATTATTTACACATCAATTAAAC
2908379 AAATAAGAATTATTTACACATCAATTAAAC
1 AAATAAGAATTATTTACACATCAATTAAAC
2908409 AAAT
1 AAAT
2908413 CAACTCTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATAAGAATTATTTACACATCAATTAAAC
Found at i:2909853 original size:42 final size:42
Alignment explanation
Indices: 2909786--2909908 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
2909776 GTGAATCGGG
* * * *
2909786 CTCTAGAATGTTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAATGATGGGAGGGGA-CTCTTGAACGATGACAGGGGC
* ** *
2909828 CTCTTGAATGGTGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGATGGGAGGGGACTCTTGAACGATGACAGGGGC
* *
2909870 CTCTTGAATGATAGGG-GAGGCCTCTTGAACGATGACAGG
1 CTCTTGAATGAT-GGGAGGGGACTCTTGAACGATGACAGG
2909909 TGAGTCGGGC
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 59 0.89
43 7 0.11
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (42 bp):
CTCTTGAATGATGGGAGGGGACTCTTGAACGATGACAGGGGC
Found at i:2909867 original size:21 final size:18
Alignment explanation
Indices: 2909843--2909887 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
2909833 GAATGGTGGG
2909843 AGGGGACTCTTGAGGGATGAT
1 AGGGGACTCTTGA---ATGAT
*
2909864 AGGGGCCTCTTGAATGAT
1 AGGGGACTCTTGAATGAT
2909882 AGGGGA
1 AGGGGA
2909888 GGCCTCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
21 12 0.55
ACGTcount: A:0.24, C:0.11, G:0.42, T:0.22
Consensus pattern (18 bp):
AGGGGACTCTTGAATGAT
Found at i:2910416 original size:18 final size:19
Alignment explanation
Indices: 2910393--2910438 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2910383 GAAACTTAAA
2910393 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
2910411 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
*
2910431 ATCACAAC
1 ATCGCAAC
2910439 CCAAATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.42
20 14 0.58
ACGTcount: A:0.41, C:0.28, G:0.15, T:0.15
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:2910527 original size:20 final size:20
Alignment explanation
Indices: 2910502--2910549 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
2910492 GCGATTCTTT
2910502 CGTTGCGATAGTCAAATT-CG
1 CGTTGCGATAGTC-AATTCCG
*
2910522 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCG
2910542 CGTTGCGA
1 CGTTGCGA
2910550 AAGTAAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:2910720 original size:18 final size:18
Alignment explanation
Indices: 2910697--2910746 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
2910687 TTTACTAAGC
2910697 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
2910715 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
*
2910733 AATCTAAGTTAAAT
1 AATCTAAGTGAAAT
2910747 TACAAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:2912510 original size:20 final size:20
Alignment explanation
Indices: 2912487--2912559 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
2912477 GAAACTTAAA
*
2912487 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
** *
2912507 ATCGCAACGCGAATTTAACT
1 ATCGCAACGCGAAAATGACT
*
2912527 ATCGCAACGCG-AAATGACA
1 ATCGCAACGCGAAAATGACT
2912546 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2912560 CTAAAATCGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.34
20 29 0.66
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2912567 original size:19 final size:19
Alignment explanation
Indices: 2912477--2912570 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 19
2912467 AATAGTTTTT
*
2912477 GAAACTTAAAATCGCAACAC
1 GAAAC-TAAAATCGCAACGC
* **
2912497 GAAAATGACTATCGCAACGC
1 GAAACT-AAAATCGCAACGC
** *
2912517 GAATTTAACTATCGCAACGC
1 GAAACTAA-AATCGCAACGC
*
2912537 GAAA-TGACAATCGCAACGC
1 GAAACT-AAAATCGCAACGC
2912556 GAAACTAAAATCGCA
1 GAAACTAAAATCGCA
2912571 TTGCGATTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
19 25 0.42
20 34 0.58
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:2917428 original size:29 final size:29
Alignment explanation
Indices: 2917333--2917437 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
2917323 GACTTGACCC
2917333 GGGTGCTATTTTTCGTAAATATTTTTAAAA
1 GGGTGCTA-TTTTCGTAAATATTTTTAAAA
* **
2917363 TGACGCTATTTTCGTAAATATTTTTAAAA
1 GGGTGCTATTTTCGTAAATATTTTTAAAA
* * *
2917392 AGGAGTTATTTTCGTAAATATTTTTAAAA
1 GGGTGCTATTTTCGTAAATATTTTTAAAA
* *
2917421 GGGTGTTAGTTTCGTAA
1 GGGTGCTATTTTCGTAA
2917438 TTAATTTCTG
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 60 0.92
30 5 0.08
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (29 bp):
GGGTGCTATTTTCGTAAATATTTTTAAAA
Found at i:2918068 original size:2 final size:2
Alignment explanation
Indices: 2918061--2918092 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2918051 GATTTGATAA
*
2918061 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2918093 TTCACTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2926612 original size:22 final size:22
Alignment explanation
Indices: 2926587--2926629 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2926577 ATCCTTTATA
*
2926587 AATAATTACACCTAATCATATG
1 AATAAATACACCTAATCATATG
*
2926609 AATAAATACACCTATTCATAT
1 AATAAATACACCTAATCATAT
2926630 TTGAACCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (22 bp):
AATAAATACACCTAATCATATG
Found at i:2940309 original size:52 final size:52
Alignment explanation
Indices: 2940230--2940329 Score: 191
Period size: 52 Copynumber: 1.9 Consensus size: 52
2940220 TTAAAATATC
2940230 TGGTATAATTACATATTTGGTCCATAATATTTACACATTCTATCAATTTATT
1 TGGTATAATTACATATTTGGTCCATAATATTTACACATTCTATCAATTTATT
*
2940282 TGGTATAATTACATATTTGGTCTATAATATTTACACATTCTATCAATT
1 TGGTATAATTACATATTTGGTCCATAATATTTACACATTCTATCAATT
2940330 CAATCATAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (52 bp):
TGGTATAATTACATATTTGGTCCATAATATTTACACATTCTATCAATTTATT
Found at i:2948782 original size:31 final size:30
Alignment explanation
Indices: 2948742--2948809 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
2948732 AAAATAAATT
* *
2948742 ATTTCTGGAAATGTTAGGACTTTATTTGAAC
1 ATTT-TGGAAACGTTAGGACCTTATTTGAAC
* *
2948773 ATATTTGGAAACGTTAGGCCCTTATTTGACC
1 AT-TTTGGAAACGTTAGGACCTTATTTGAAC
2948804 ATTTTG
1 ATTTTG
2948810 AAAAAATAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 4 0.12
31 26 0.81
32 2 0.06
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (30 bp):
ATTTTGGAAACGTTAGGACCTTATTTGAAC
Found at i:2950375 original size:18 final size:18
Alignment explanation
Indices: 2950334--2950376 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2950324 TTAAAAACAT
*
2950334 TAAAAATTCTAACAAAAC
1 TAAAAATTCTAACAAAAA
** *
2950352 GGAAAATTCTAATAAAAA
1 TAAAAATTCTAACAAAAA
2950370 TAAAAAT
1 TAAAAAT
2950377 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAATTCTAACAAAAA
Found at i:2950635 original size:2 final size:2
Alignment explanation
Indices: 2950628--2950656 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2950618 GTGATTGGTT
2950628 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2950657 CAATATAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2957275 original size:20 final size:20
Alignment explanation
Indices: 2957247--2957294 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2957237 AGTTGGTCAA
*
2957247 ACCAACTACTAGAATCAGCT
1 ACCAGCTACTAGAATCAGCT
2957267 ACCAGCTACTAGAATCAGCT
1 ACCAGCTACTAGAATCAGCT
2957287 ACCAGCTA
1 ACCAGCTA
2957295 TAAGTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (20 bp):
ACCAGCTACTAGAATCAGCT
Found at i:2961205 original size:140 final size:140
Alignment explanation
Indices: 2961033--2961315 Score: 541
Period size: 140 Copynumber: 2.0 Consensus size: 140
2961023 GAAAGGAAAA
2961033 AGATCCCGTGGATGCAGATCCAGCACCCGCCAATGCGTCAGCAGGTAATGGCTCTAATGATTCAT
1 AGATCCCGTGGATGCAGATCCAGCACCCGCCAATGCGTCAGCAGGTAATGGCTCTAATGATTCAT
2961098 TAGGGATAGATAATAGTGTGATTTACTCAAATAATCATCTACAAGAAGAAGCACAAGTCAGA-GC
66 TAGGGATAGATAATAGTGTGATTTACTCAAATAATCATCTACAAGAAGAAGCAC-AGTCAGAGGC
2961162 TGTAGTCAGTC
130 TGTAGTCAGTC
2961173 AGATCCCGTGGATGCAGATCCAGCACCCGCCAATGCGTCAGCAGGTAATGGCTCTAATGATTCAT
1 AGATCCCGTGGATGCAGATCCAGCACCCGCCAATGCGTCAGCAGGTAATGGCTCTAATGATTCAT
2961238 TAGGGATAGATAATAGTGTGATTTACTCAAATAATCATCTACAAGAAGAAGCACAGTCAGAGGCT
66 TAGGGATAGATAATAGTGTGATTTACTCAAATAATCATCTACAAGAAGAAGCACAGTCAGAGGCT
*
2961303 GTATTCAGTC
131 GTAGTCAGTC
2961313 AGA
1 AGA
2961316 AGTTAAATGA
Statistics
Matches: 141, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
139 7 0.05
140 134 0.95
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (140 bp):
AGATCCCGTGGATGCAGATCCAGCACCCGCCAATGCGTCAGCAGGTAATGGCTCTAATGATTCAT
TAGGGATAGATAATAGTGTGATTTACTCAAATAATCATCTACAAGAAGAAGCACAGTCAGAGGCT
GTAGTCAGTC
Found at i:2962248 original size:15 final size:15
Alignment explanation
Indices: 2962228--2962257 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2962218 TCCTATAATT
2962228 CTCTTCCAGAAGTTC
1 CTCTTCCAGAAGTTC
2962243 CTCTTCCAGAAGTTC
1 CTCTTCCAGAAGTTC
2962258 AGTCAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (15 bp):
CTCTTCCAGAAGTTC
Found at i:2964275 original size:11 final size:11
Alignment explanation
Indices: 2964259--2964285 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2964249 AAATAAGCTG
2964259 CAACCATTGCT
1 CAACCATTGCT
2964270 CAACCATTGCT
1 CAACCATTGCT
2964281 CAACC
1 CAACC
2964286 TCCCAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.41, G:0.07, T:0.22
Consensus pattern (11 bp):
CAACCATTGCT
Found at i:2975501 original size:19 final size:18
Alignment explanation
Indices: 2975473--2975526 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
2975463 GATTCAGAGA
2975473 TAAGGATTTTAAGAAATT
1 TAAGGATTTTAAGAAATT
*
2975491 TAAGAGATTTT-CGAGAATT
1 TAAG-GATTTTAAGA-AATT
*
2975510 TAAGGGTTTTAA-AAATT
1 TAAGGATTTTAAGAAATT
2975527 AATTAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 4 0.13
18 12 0.40
19 14 0.47
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (18 bp):
TAAGGATTTTAAGAAATT
Found at i:2975563 original size:28 final size:30
Alignment explanation
Indices: 2975532--2975602 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
2975522 AAATTAATTA
*
2975532 ATTTTTATTATAAATTC-TATATTA-AA-AT
1 ATTTATATTATAAATTCTTAT-TTATAATAT
*
2975560 ATTTATA-TATTAA-TCTTATTTATAATAT
1 ATTTATATTATAAATTCTTATTTATAATAT
2975588 ATTTATATTATAAAT
1 ATTTATATTATAAAT
2975603 AATATTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
26 5 0.14
27 10 0.29
28 15 0.43
29 5 0.14
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
ATTTATATTATAAATTCTTATTTATAATAT
Found at i:2975589 original size:20 final size:20
Alignment explanation
Indices: 2975564--2975621 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
2975554 TAAAATATTT
* **
2975564 ATATATTAATCTTATTTATA
1 ATATATTAATATTATAAATA
*
2975584 ATATATTTATATTATAAATA
1 ATATATTAATATTATAAATA
*
2975604 ATATTTTAAT-TT-TAAATA
1 ATATATTAATATTATAAATA
2975622 TAAATTATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 6 0.19
19 2 0.06
20 24 0.75
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTAATATTATAAATA
Found at i:2975613 original size:28 final size:28
Alignment explanation
Indices: 2975532--2975613 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 28
2975522 AAATTAATTA
* ** * *
2975532 ATTTTTATTATAAATTCTATATTAAAAT
1 ATTTATATTATAAATAATATTTTAATAT
* **
2975560 ATTTATA-TATTAATCTTATTTATAATAT
1 ATTTATATTATAAATAATATTT-TAATAT
2975588 ATTTATATTATAAATAATATTTTAAT
1 ATTTATATTATAAATAATATTTTAAT
2975614 TTTAAATATA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
27 10 0.23
28 22 0.51
29 11 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTTATATTATAAATAATATTTTAATAT
Found at i:2975619 original size:18 final size:20
Alignment explanation
Indices: 2975581--2975621 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
2975571 AATCTTATTT
2975581 ATAATATATTTATATTATAA
1 ATAATATATTTATATTATAA
*
2975601 ATAATAT-TTTA-ATTTTAA
1 ATAATATATTTATATTATAA
2975619 ATA
1 ATA
2975622 TAAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATATATTTATATTATAA
Found at i:2977643 original size:19 final size:19
Alignment explanation
Indices: 2977619--2977656 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2977609 ACCATGTAAG
2977619 TCACTTCAAGTCATCCTAT
1 TCACTTCAAGTCATCCTAT
2977638 TCACTTCAAGTCATCCTAT
1 TCACTTCAAGTCATCCTAT
2977657 AATTTTCTGC
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:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
TCACTTCAAGTCATCCTAT
Found at i:2981597 original size:18 final size:17
Alignment explanation
Indices: 2981576--2981618 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2981566 ATATATACAT
2981576 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
2981594 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
2981611 ATAA-AATA
1 ATAATAATA
2981619 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:2982052 original size:37 final size:36
Alignment explanation
Indices: 2982009--2982110 Score: 154
Period size: 34 Copynumber: 2.9 Consensus size: 36
2981999 ATAGTAGAAC
*
2982009 TCTATCCTATTTTTAAGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
*
2982046 TTTATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
*
2982080 TCTATCATATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
2982111 TAGGACGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
34 32 0.54
37 27 0.46
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:2984067 original size:55 final size:55
Alignment explanation
Indices: 2983983--2984088 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
2983973 TGATCATGAA
*
2983983 TGTTTCTGAGAATTCATAGCATTTAAGATTTCCCTT-TTCACTGTTATTGTTAATT
1 TGTTTCTGAGAATTCATAGCAGTTAAGATTTCCCTTATT-ACTGTTATTGTTAATT
*
2984038 TGTTTCTGAGAATTCATAGCAGTTAAGATTTCGCTTATTACTGTTATTGTT
1 TGTTTCTGAGAATTCATAGCAGTTAAGATTTCCCTTATTACTGTTATTGTT
2984089 GACATTAACA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
55 46 0.96
56 2 0.04
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (55 bp):
TGTTTCTGAGAATTCATAGCAGTTAAGATTTCCCTTATTACTGTTATTGTTAATT
Found at i:2985020 original size:2 final size:2
Alignment explanation
Indices: 2985013--2985041 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2985003 TTAAAGGAGC
2985013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2985042 TCCTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2986029 original size:24 final size:24
Alignment explanation
Indices: 2985997--2986045 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
2985987 CGGGTAGTTG
*
2985997 GGTTGTTTTGCAAGAGAACCATAA
1 GGTTGTTTTCCAAGAGAACCATAA
*
2986021 GGTTGTTTTCCAGGAGAACCATAA
1 GGTTGTTTTCCAAGAGAACCATAA
2986045 G
1 G
2986046 CATCGAGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (24 bp):
GGTTGTTTTCCAAGAGAACCATAA
Found at i:2987899 original size:2 final size:2
Alignment explanation
Indices: 2987892--2987918 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2987882 ACAAAAGTAA
2987892 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2987919 AGTGTTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2994225 original size:17 final size:17
Alignment explanation
Indices: 2994182--2994233 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
2994172 AATACAGTAG
*
2994182 AAACTCTTTAAATTAAT
1 AAACTCTCTAAATTAAT
**
2994199 --ACTCGGTAAATTAAT
1 AAACTCTCTAAATTAAT
*
2994214 AAACTCTCTAAAATAAT
1 AAACTCTCTAAATTAAT
2994231 AAA
1 AAA
2994234 TTTGTCTGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
AAACTCTCTAAATTAAT
Found at i:2997518 original size:37 final size:36
Alignment explanation
Indices: 2997463--2997584 Score: 196
Period size: 36 Copynumber: 3.4 Consensus size: 36
2997453 ATTATTATTC
2997463 AAATTT-TGTTTAATTGAATTAAATTAATTTTTTTTT
1 AAATTTATGTTTAATTGAATTAAATTAA-TTTTTTTT
*
2997499 AAATTTATGTTTAACTGAATTAAATTAATTTTTTTT
1 AAATTTATGTTTAATTGAATTAAATTAATTTTTTTT
*
2997535 AAAGTTATGTTTAATTGAATTAAATT-A-TTTTTTT
1 AAATTTATGTTTAATTGAATTAAATTAATTTTTTTT
2997569 AAATTTATGTTTAATT
1 AAATTTATGTTTAATT
2997585 ATAATTATTT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
34 22 0.27
35 1 0.01
36 38 0.47
37 20 0.25
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (36 bp):
AAATTTATGTTTAATTGAATTAAATTAATTTTTTTT
Found at i:2998952 original size:80 final size:81
Alignment explanation
Indices: 2998811--2999396 Score: 671
Period size: 80 Copynumber: 7.2 Consensus size: 81
2998801 AAACAATCGA
* ** * *
2998811 CAGCATAACTCATGGTGAGAAGGGTTATCTGTCAGCAAGGACCTTCGAGTTCGACTACGCTCAGC
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTG-C-CCAAAGACCTTCGAGTTCGACTACGCTCAGC
*
2998876 TCCAAGGCACATCATTTA
64 TCCAAGGCACATCATTTG
* * *
2998894 CAGCATAGCTTAAGGCAAGAAGGGTTATCTG-CCAAAGACCTTCGAGTTTGACTACGCTCAGCTC
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
*
2998958 CAAGGCACTTCATTTG
66 CAAGGCACATCATTTG
** * * * * **
2998974 CAATATAGCTCAAGGAAAGAAGGGATATTTGCCAACAAAAGATTTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCC--C-AAAGACCTTCGAGTTCGACTACGCTCAG
*
2999039 CT-CAAGGCATATCATTTG
63 CTCCAAGGCACATCATTTG
* * *
2999057 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACATTCGAGTTCGATTACGCTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTG-C--CCAAAGACCTTCGAGTTCGACTACGCTCAG
*
2999122 CTTCAAGGCACATCATTTG
63 CTCCAAGGCACATCATTTG
* * *
2999141 CAGCATAACTTAAGGCAATAAGGGTTATCTG-CCAAAGACATTCGAGTTCGACTACGCTCAGCT-
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
*
2999204 CAAGGCATATCATTTG
66 CAAGGCACATCATTTG
* * *
2999220 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAATACCTTCGAGTTCGACTACGCTTAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTG-C--CCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
2999285 CTCCAAGACACATCATTTA
63 CTCCAAGGCACATCATTTG
* * *
2999304 TAGCATAACTCAAGGCTAA-AATGGTTATCTG-CCAAAGACCTTCGAGTTCGACTATGCTCAGCT
1 CAGCATAACTCAAGGC-AAGAAGGGTTATCTGCCCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
2999367 CAAAGGCATATCATTTG
65 CCAAGGCACATCATTTG
* *
2999384 CAACATAGCTCAA
1 CAGCATAACTCAA
2999397 ATGCATATCA
Statistics
Matches: 430, Mismatches: 59, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
79 43 0.10
80 152 0.35
81 1 0.00
83 121 0.28
84 111 0.26
85 1 0.00
86 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (81 bp):
CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
CAAGGCACATCATTTG
Found at i:2999187 original size:163 final size:164
Alignment explanation
Indices: 2998811--2999396 Score: 729
Period size: 163 Copynumber: 3.6 Consensus size: 164
2998801 AAACAATCGA
* * * * *
2998811 CAGCATAACTCATGGTGAGAAGGGTTATCTGTCAGCAAGGACCTTCGAGTTCGACTACGCTCAGC
1 CAGCATAACTCAAGG-CAAAAGGGTTATCTGCCA-CAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * *
2998876 TCCAAGGCACATCATTTACAGCATAGCTTAAGGCAAGAAGGGTTATCTG----CCAAAGACCTTC
64 T-CAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTC
* *
2998937 GAGTTTGACTACGCTCAGCTCCAAGGCACTTCATTTG
128 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
** * * * * **
2998974 CAATATAGCTCAAGGAAAGAAGGGATATTTGCCAACAAAAGATTTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCAA-AAGGGTTATCTGCC-AC-AAAGACCTTCGAGTTCGACTACGCTCAG
*
2999039 CTCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACATTC
63 CTCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTC
* *
2999104 GAGTTCGATTACGCTCAGCTTCAAGGCACATCATTTG
128 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* *
2999141 CAGCATAACTTAAGGCAATAAGGGTTATCTG-C-CAAAGACATTCGAGTTCGACTACGCTCAGCT
1 CAGCATAACTCAAGGCAA-AAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCT
*
2999204 CAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAATACCTTCGA
65 CAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGA
* * *
2999269 GTTCGACTACGCTTAGCTCCAAGACACATCATTTA
130 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * *
2999304 TAGCATAACTCAAGGCTAAAATGGTTATCTG-C-CAAAGACCTTCGAGTTCGACTATGCTCAGCT
1 CAGCATAACTCAAGGC-AAAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
2999367 CAAAGGCATATCATTTGCAACATAGCTCAA
65 C-AAGGCATATCATTTGCAGCATAACTCAA
2999397 ATGCATATCA
Statistics
Matches: 368, Mismatches: 46, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
162 1 0.00
163 242 0.66
164 57 0.15
166 1 0.00
167 67 0.18
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
CAGCATAACTCAAGGCAAAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTC
AAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
TTCGACTACGCTCAGCTCCAAGGCACATCATTTG
Found at i:2999302 original size:247 final size:245
Alignment explanation
Indices: 2998810--2999390 Score: 769
Period size: 247 Copynumber: 2.4 Consensus size: 245
2998800 GAAACAATCG
* * *
2998810 ACAGCATAACTCATGG-TGAGAAGGGTTATCTGTCAGCAAGGACCTTCGAGTTCGACTACGCTCA
1 ACAGCATAACTCAAGGCT-AGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
2998874 GCTCCAAGGCACATCATTTACAGCATAGCTTAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGA
64 GCTTCAAGGCACATCATTTGCAGCATAACTTAAGGCAAGAAGGGTTATCTGCCAAAGACATTCGA
* * * *
2998939 GTTTGACTACGCTCAGCTCCAAGGCACTTCATTTGCAATATAGCTCAAGGAAAGAAGGGATATTT
129 GTTCGACTACGCTCAGCTCCAAGGCACTTCATTTGCAACATAACTCAAGGAAAGAAGGGATATCT
** * *
2999004 GCCAACAAAAGATTTTCGAGTTCGACTACGCTCAGCTCAAGGCATATCATTT
194 GCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGACACATCATTT
* * *
2999056 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACATTCGAGTTCGATTACGCTCA
1 ACAGCATAACTCAAGGCTAGAAGGGTTATCTG-C-ACCAAAGACCTTCGAGTTCGACTACGCTCA
*
2999121 GCTTCAAGGCACATCATTTGCAGCATAACTTAAGGCAATAAGGGTTATCTGCCAAAGACATTCGA
64 GCTTCAAGGCACATCATTTGCAGCATAACTTAAGGCAAGAAGGGTTATCTGCCAAAGACATTCGA
* ** *
2999186 GTTCGACTACGCTCAGCT-CAAGGCA-TATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATC
129 GTTCGACTACGCTCAGCTCCAAGGCACT-TCATTTGCAACATAACTCAAGGAAAGAAGGGATATC
* * *
2999249 TGCCAACCAAATACCTTCGAGTTCGACTACGCTTAGCTCCAAGACACATCATTT
193 TGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGACACATCATTT
* * * *
2999303 ATAGCATAACTCAAGGCTAAAATGGTTATCTG--CCAAAGACCTTCGAGTTCGACTATGCTCAGC
1 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
2999366 -TCAAAGGCATATCATTTGCAACATA
66 TTC-AAGGCACATCATTTGCAGCATA
2999391 GCTCAAATGC
Statistics
Matches: 294, Mismatches: 36, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
242 2 0.01
243 48 0.16
245 1 0.00
246 98 0.33
247 145 0.49
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (245 bp):
ACAGCATAACTCAAGGCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TTCAAGGCACATCATTTGCAGCATAACTTAAGGCAAGAAGGGTTATCTGCCAAAGACATTCGAGT
TCGACTACGCTCAGCTCCAAGGCACTTCATTTGCAACATAACTCAAGGAAAGAAGGGATATCTGC
CAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGACACATCATTT
Found at i:2999402 original size:27 final size:27
Alignment explanation
Indices: 2999363--2999422 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
2999353 GACTATGCTC
2999363 AGCTCAAAGGCATATCATTTGCAACAT
1 AGCTCAAAGGCATATCATTTGCAACAT
*
2999390 AGCTCAAATGCATATCATTTGCAACAT
1 AGCTCAAAGGCATATCATTTGCAACAT
*
2999417 AACTCA
1 AGCTCA
2999423 CGGCAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (27 bp):
AGCTCAAAGGCATATCATTTGCAACAT
Found at i:2999470 original size:107 final size:107
Alignment explanation
Indices: 2999307--2999503 Score: 313
Period size: 107 Copynumber: 1.8 Consensus size: 107
2999297 TCATTTATAG
* * * * *
2999307 CATAACTCAAGGCTAAAATGGTTATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTCAAAG
1 CATAACTCAAGGCAAAAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAACTCAAAG
* *
2999372 GCATATCATTTGCAACATAGCTCAAATGCATATCATTTGCAA
66 GCACATCATTTGCAACATAACTCAAATGCATATCATTTGCAA
* *
2999414 CATAACTCACGGCAAAAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAG
1 CATAACTCAAGGCAAAAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAACTCAAAG
2999479 GCACATCATTTGCAACATAACTCAA
66 GCACATCATTTGCAACATAACTCAA
2999504 GGCTAGAAGG
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 81 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (107 bp):
CATAACTCAAGGCAAAAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAACTCAAAG
GCACATCATTTGCAACATAACTCAAATGCATATCATTTGCAA
Found at i:2999528 original size:187 final size:187
Alignment explanation
Indices: 2999200--2999587 Score: 526
Period size: 187 Copynumber: 2.1 Consensus size: 187
2999190 GACTACGCTC
* * * * *
2999200 AGCTCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAATACCT
1 AGCTCAAGGCATATCATTTGCAACATAACTCAAGGCAAAAAGGGCTATCTG---ACCAAAGACCT
* * * * *
2999265 TCGAGTTCGACTACGCTTAGCTCCAAGACACATCATTTATAGCATAACTCAAGGCTAAAATGGTT
63 TCGAGTTCGACTACGCTCAACTCCAAGACACATCATTTACAACATAACTCAAGGCTAAAAGGGTT
** *
2999330 ATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTCAAAGGCATATCATTTGCAACAT
128 ATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAACAT
* *
2999390 AGCTCAAATGCATATCATTTGCAACATAACTCACGGCAAAAAGGGCTATCTG-CCAAAGACCTTC
1 AGCTC-AAGGCATATCATTTGCAACATAACTCAAGGCAAAAAGGGCTATCTGACCAAAGACCTTC
* * *
2999454 GAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTAT
65 GAGTTCGACTACGCTCAACTCCAAGACACATCATTTACAACATAACTCAAGGCTAAAAGGGTTAT
* * * *
2999519 CTTCCAAAGACCTTCGAGTTCGATTCCACTCAGCTCAAAGGCACATCATTTGCAGCAT
130 CTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAACAT
*
2999577 AGCTTAAGGCA
1 AGCTCAAGGCA
2999588 AAAAGGGTTA
Statistics
Matches: 173, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
186 5 0.03
187 123 0.71
190 5 0.03
191 40 0.23
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (187 bp):
AGCTCAAGGCATATCATTTGCAACATAACTCAAGGCAAAAAGGGCTATCTGACCAAAGACCTTCG
AGTTCGACTACGCTCAACTCCAAGACACATCATTTACAACATAACTCAAGGCTAAAAGGGTTATC
TGCCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAACAT
Found at i:2999536 original size:80 final size:80
Alignment explanation
Indices: 2999403--2999825 Score: 506
Period size: 80 Copynumber: 5.2 Consensus size: 80
2999393 TCAAATGCAT
* * * * * *
2999403 ATCATTTGCAACATAACTCACGGCAAAAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGC
1 ATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACAC
*
2999468 TCAACTCCAAGGCAC
66 TCAGCTCCAAGGCAC
* * * *
2999483 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTTCCAAAGACCTTCGAGTTCGATTCCAC
1 ATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACAC
*
2999548 TCAGCTCAAAGGCAC
66 TCAGCTCCAAGGCAC
* * * * * * * *
2999563 ATCATTTGCAGCATAGCTTAAGGCAAAAAGGGTTATTTACCAAAGACCTTCAAGTTCGACTACGC
1 ATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACAC
2999628 TCAGCTCCAAGGCAC
66 TCAGCTCCAAGGCAC
* * *
2999643 ATCATTTGCAGCATAACTCAAGGTTATAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACAC
1 ATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACAC
* * *
2999708 TCAGCTTCGAGGATAC
66 TCAGCTCCAAGG-CAC
* * *
2999724 GA-CATTTTCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACTTTCGAGTTCGATTACA
1 -ATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACA
* * *
2999788 CTCAGCTCAAAGGTAA
65 CTCAGCTCCAAGGCAC
*
2999804 ATCAAATTTGTAGCATAACTCA
1 ATC--ATTTGCAGCATAACTCA
2999826 GGGCAAGAGG
Statistics
Matches: 291, Mismatches: 47, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.00
80 205 0.70
81 69 0.24
82 16 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (80 bp):
ATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACAC
TCAGCTCCAAGGCAC
Found at i:2999632 original size:267 final size:267
Alignment explanation
Indices: 2999133--2999663 Score: 740
Period size: 267 Copynumber: 2.0 Consensus size: 267
2999123 TTCAAGGCAC
* * * *
2999133 ATCATTTGCAGCATAACTTAAGGCAATAAGGGTTATCTGCCAAAGACATTCGAGTTCGACTACGC
1 ATCATTTGCAACATAACTCAAGGCAAAAAGGGCTATCTGCCAAAGACATTCGAGTTCGACTACGC
* * * *
2999198 TCAGCTCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAATAC
66 TCAACTCAAGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCT--C-ACCAAAGAC
* * * * * *
2999263 CTTCGAGTTCGACTACGCTTAGCTCCAAGACACATCATTTATAGCATAACTCAAGGCTAAAATGG
128 CTTCGAGTTCGACTACACTCAGCTCAAAGACACATCATTTACAGCATAACTCAAGGCAAAAAGGG
* * * * *
2999328 TTATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTCAAAGGCATATCATTTGCAACATAGC
193 TTATCTACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAACATAAC
2999393 TCAAATGCAT
258 TCAAATGCAT
* *
2999403 ATCATTTGCAACATAACTCACGGCAAAAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGC
1 ATCATTTGCAACATAACTCAAGGCAAAAAGGGCTATCTGCCAAAGACATTCGAGTTCGACTACGC
*
2999468 TCAACTCCAAGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCT-TCCAAAGACCT
66 TCAACT-CAAGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTCACCAAAGACCT
* * * * * *
2999532 TCGAGTTCGATTCCACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGGCAAAAAGGGTT
130 TCGAGTTCGACTACACTCAGCTCAAAGACACATCATTTACAGCATAACTCAAGGCAAAAAGGGTT
* * *
2999597 ATTTACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTC
195 ATCTACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAACATAACTC
2999662 AA
260 AA
2999664 GGTTATAAGG
Statistics
Matches: 229, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
267 121 0.53
270 64 0.28
271 44 0.19
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (267 bp):
ATCATTTGCAACATAACTCAAGGCAAAAAGGGCTATCTGCCAAAGACATTCGAGTTCGACTACGC
TCAACTCAAGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTCACCAAAGACCTT
CGAGTTCGACTACACTCAGCTCAAAGACACATCATTTACAGCATAACTCAAGGCAAAAAGGGTTA
TCTACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAACATAACTCA
AATGCAT
Found at i:3001262 original size:25 final size:26
Alignment explanation
Indices: 3001221--3001272 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
3001211 TTTAGTTATT
3001221 CATTTTTTTCTCTTTTTTAATTTTAG
1 CATTTTTTTCTCTTTTTTAATTTTAG
*
3001247 CATTCTTTTTC-C-TTTTTAGTTTTAG
1 CATT-TTTTTCTCTTTTTTAATTTTAG
3001272 C
1 C
3001273 GGTTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 13 0.54
26 5 0.21
27 6 0.25
ACGTcount: A:0.13, C:0.15, G:0.06, T:0.65
Consensus pattern (26 bp):
CATTTTTTTCTCTTTTTTAATTTTAG
Found at i:3001325 original size:14 final size:15
Alignment explanation
Indices: 3001286--3001331 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
3001276 TTTTATTTTA
*
3001286 TTTATTTT-TTATTT
1 TTTATTTTATTACTT
3001300 TTTACTTCTTATT-CTT
1 TTTA-TT-TTATTACTT
3001316 TTTATTTTATTACTT
1 TTTATTTTATTACTT
3001331 T
1 T
3001332 ATTTAACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 9 0.33
15 8 0.30
16 8 0.30
17 2 0.07
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTACTT
Found at i:3001435 original size:24 final size:25
Alignment explanation
Indices: 3001408--3001462 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
3001398 TTTATTATTA
3001408 TTATTATTAAT-TTTTTT-CTTTGAT
1 TTATT-TTAATATTTTTTCCTTTGAT
3001432 TTA-TTTAATATTTTTTCCTTTGAT
1 TTATTTTAATATTTTTTCCTTTGAT
3001456 TTATTTT
1 TTATTTT
3001463 TTTTCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 13 0.46
25 3 0.11
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (25 bp):
TTATTTTAATATTTTTTCCTTTGAT
Found at i:3001463 original size:40 final size:40
Alignment explanation
Indices: 3001414--3001499 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
3001404 ATTATTATTA
* *
3001414 TTAATTT-TTTTCTTT-GATTTATT-TAATATTTTTTCCT
1 TTAATTTATTTTTTTTCTATTTATTATAATATTTTTTCCT
* * *
3001451 TTGATTTATTTTTTTTCTTTTTATTATTATATTTTTTCCT
1 TTAATTTATTTTTTTTCTATTTATTATAATATTTTTTCCT
3001491 TTAATTTAT
1 TTAATTTAT
3001500 ATAATATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 6 0.15
38 7 0.17
39 6 0.15
40 21 0.52
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (40 bp):
TTAATTTATTTTTTTTCTATTTATTATAATATTTTTTCCT
Found at i:3001471 original size:24 final size:24
Alignment explanation
Indices: 3001414--3001506 Score: 82
Period size: 24 Copynumber: 4.3 Consensus size: 24
3001404 ATTATTATTA
3001414 TTAAT-TTTTTT-CTTTGATTTAT
1 TTAATATTTTTTCCTTTGATTTAT
3001436 TTAATATTTTTTCCTTTGATTTAT
1 TTAATATTTTTTCCTTTGATTTAT
3001460 TT--T-TTTTCTT--TTT-A-TTA-
1 TTAATATTTT-TTCCTTTGATTTAT
*
3001477 TT-ATATTTTTTCCTTTAATTTAT
1 TTAATATTTTTTCCTTTGATTTAT
*
3001500 ATAATAT
1 TTAATAT
3001507 ATATTTATTA
Statistics
Matches: 59, Mismatches: 1, Indels: 20
0.74 0.01 0.25
Matches are distributed among these distances:
17 2 0.03
18 6 0.10
19 5 0.08
20 6 0.10
21 5 0.08
22 11 0.19
23 7 0.12
24 17 0.29
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (24 bp):
TTAATATTTTTTCCTTTGATTTAT
Found at i:3001485 original size:64 final size:64
Alignment explanation
Indices: 3001346--3001506 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 64
3001336 AACATTTCTT
* ** *
3001346 TTATT-TATTTTTCCCTTTGATTTATTTTTTTAATTTTTTCTTTGATTTGTTATTTATTATTATT
1 TTATTATATTTTTTCCTTTGATTTA-TTTAAT-ATTTTTTCTTTGATTTATTATTTATTATTATT
3001410 A
64 A
* * * *
3001411 TTATTA-ATTTTTTTCTTTGATTTATTTAATATTTTTTCCTTTGATTTATT-TTTTTTCTTTTTA
1 TTATTATATTTTTTCCTTTGATTTATTTAATATTTTTT-CTTTGATTTATTATTTATTATTATTA
* *
3001474 TTATTATATTTTTTCCTTTAATTTATATAATAT
1 TTATTATATTTTTTCCTTTGATTTATTTAATAT
3001507 ATATTTATTA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 23 0.28
64 38 0.46
65 21 0.26
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.70
Consensus pattern (64 bp):
TTATTATATTTTTTCCTTTGATTTATTTAATATTTTTTCTTTGATTTATTATTTATTATTATTA
Found at i:3001500 original size:19 final size:19
Alignment explanation
Indices: 3001434--3001501 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
3001424 TCTTTGATTT
*
3001434 ATTTAATATTTTTTCCTTTG
1 ATTT-ATATTTTTTCCTTTA
* *
3001454 ATTTATTTTTTTTCTTTTTA
1 ATTTATATTTTTTC-CTTTA
*
3001474 TTATTATATTTTTTCCTTTA
1 AT-TTATATTTTTTCCTTTA
3001494 ATTTATAT
1 ATTTATAT
3001502 AATATATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 15 0.38
20 13 0.33
21 11 0.28
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (19 bp):
ATTTATATTTTTTCCTTTA
Found at i:3001514 original size:40 final size:40
Alignment explanation
Indices: 3001430--3001518 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
3001420 TTTTTCTTTG
* * * ** * *
3001430 ATTTATT-TAATATTTTTTCCTTTGATTTATTTTTTTTCT
1 ATTTATTATTATATTTTTTCCTTTAATTTATATAATATAT
*
3001469 TTTTATTATTATATTTTTTCCTTTAATTTATATAATATAT
1 ATTTATTATTATATTTTTTCCTTTAATTTATATAATATAT
3001509 ATTTATTATT
1 ATTTATTATT
3001519 TTTTGATTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 6 0.15
40 34 0.85
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.69
Consensus pattern (40 bp):
ATTTATTATTATATTTTTTCCTTTAATTTATATAATATAT
Found at i:3002333 original size:2 final size:2
Alignment explanation
Indices: 3002326--3002355 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3002316 ACGCTTTAGC
3002326 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
3002356 TTATCATAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3010051 original size:81 final size:81
Alignment explanation
Indices: 3009902--3010049 Score: 192
Period size: 79 Copynumber: 1.8 Consensus size: 81
3009892 AATAATTTTT
* * * *
3009902 CCTAATAACAAATGCTAAAAATAAATAAATTCTAAGAGTATGCCCATAATAACAAGTATTGAAAA
1 CCTAATAACAAATGATAAAAATAAATAAATTCTAAGAGTATACCCATAATAAAAAATATTGAAAA
3009967 AAATGGCTCCCTATTC
66 AAATGGCTCCCTATTC
* * * * *
3009983 CCTAATAACAAAT-ATTAAAA-AATTAAGTTTTAAGAGTATACTCATAATAAAAAAATATTGAAA
1 CCTAATAACAAATGATAAAAATAAATAAATTCTAAGAGTATACCCATAAT-AAAAAATATTGAAA
3010046 AAAA
65 AAAA
3010050 ATATTAGACC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 23 0.40
80 21 0.37
81 13 0.23
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (81 bp):
CCTAATAACAAATGATAAAAATAAATAAATTCTAAGAGTATACCCATAATAAAAAATATTGAAAA
AAATGGCTCCCTATTC
Found at i:3012370 original size:53 final size:55
Alignment explanation
Indices: 3012296--3012404 Score: 150
Period size: 53 Copynumber: 2.0 Consensus size: 55
3012286 AATTAAACAC
*
3012296 ATTAATTAATAATTTAATATCTTT-TT-TTATTTATTAAAAAATTAATAATAATT
1 ATTAATTAATAATTTAATATCTTTCTTATTATCTATTAAAAAATTAATAATAATT
* ** * *
3012349 ATTAATTAATAATTTAGTATCTTTCTTATTATCTATTAGTAAATTAGTAATTATT
1 ATTAATTAATAATTTAATATCTTTCTTATTATCTATTAAAAAATTAATAATAATT
3012404 A
1 A
3012405 AATAGATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
53 23 0.48
54 2 0.04
55 23 0.48
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (55 bp):
ATTAATTAATAATTTAATATCTTTCTTATTATCTATTAAAAAATTAATAATAATT
Found at i:3019324 original size:22 final size:22
Alignment explanation
Indices: 3019296--3019347 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
3019286 AGAAGTAGAG
3019296 GTGGCGTGGTGATGTCCATGAT
1 GTGGCGTGGTGATGTCCATGAT
3019318 GTGGCGTGGTGATGTCCATGAT
1 GTGGCGTGGTGATGTCCATGAT
3019340 GTGGCGTG
1 GTGGCGTG
3019348 ATGCGTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.12, C:0.13, G:0.44, T:0.31
Consensus pattern (22 bp):
GTGGCGTGGTGATGTCCATGAT
Found at i:3020081 original size:2 final size:2
Alignment explanation
Indices: 3020074--3020119 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3020064 TTTTCCAATT
3020074 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3020116 TA TA
1 TA TA
3020120 ATTTTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3021375 original size:25 final size:23
Alignment explanation
Indices: 3021334--3021405 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 23
3021324 TTTATTTATT
*
3021334 AATATTTATAATAATATAATATA
1 AATATTTATAATAATATAAAATA
*
3021357 AATATTTTTAATATTATATAAAATAA
1 AATATTTATAATA--ATATAAAAT-A
3021383 TCAATTATATTATAATAATATAA
1 --AA-TAT-TTATAATAATATAA
3021406 GATATTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 12 0.31
25 8 0.21
26 1 0.03
28 8 0.21
29 3 0.08
30 7 0.18
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (23 bp):
AATATTTATAATAATATAAAATA
Found at i:3021521 original size:23 final size:23
Alignment explanation
Indices: 3021479--3021540 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
3021469 TATTATTTAC
*
3021479 ATATTTAAATAATATTTTAATAAAG
1 ATATTT-AA-AATATATTAATAAAG
* *
3021504 ATATTTAAAATATATTAATTAAT
1 ATATTTAAAATATATTAATAAAG
*
3021527 ATTTTTAAAATATA
1 ATATTTAAAATATA
3021541 ATATAACACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.76
24 2 0.06
25 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATTTAAAATATATTAATAAAG
Found at i:3021884 original size:13 final size:14
Alignment explanation
Indices: 3021842--3021881 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
3021832 GATGTAATTC
*
3021842 ATTTTACAAAAAAT
1 ATTTTCCAAAAAAT
3021856 ATTTTCCAAAAAAT
1 ATTTTCCAAAAAAT
3021870 ATTTTCCAAAAA
1 ATTTTCCAAAAA
3021882 TATAATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATTTTCCAAAAAAT
Found at i:3024955 original size:40 final size:41
Alignment explanation
Indices: 3024905--3024984 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 41
3024895 TGAAGTGCAG
3024905 ATAAGAAAAGCAGCGTTGATTTGCAAGTATTTACCCACTTA
1 ATAAGAAAAGCAGCGTTGATTTGCAAGTATTTACCCACTTA
3024946 ATAAG-AAAGCAGCGTTGATTTGCAAGTATTTACCCACTT
1 ATAAGAAAAGCAGCGTTGATTTGCAAGTATTTACCCACTT
3024985 GACTTAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (41 bp):
ATAAGAAAAGCAGCGTTGATTTGCAAGTATTTACCCACTTA
Found at i:3029483 original size:22 final size:22
Alignment explanation
Indices: 3029455--3029500 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
3029445 TAGCTGTATA
3029455 AATGCTTAACCCACTACCTTTT
1 AATGCTTAACCCACTACCTTTT
3029477 AATGCTTAACCCACTACCTTTT
1 AATGCTTAACCCACTACCTTTT
3029499 AA
1 AA
3029501 ACAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.35
Consensus pattern (22 bp):
AATGCTTAACCCACTACCTTTT
Found at i:3029668 original size:23 final size:21
Alignment explanation
Indices: 3029642--3029683 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
3029632 TGATATGAAC
3029642 TTTTAAAATTTTAAAAAGAGAAA
1 TTTTAAAA-TTT-AAAAGAGAAA
*
3029665 TTTTAAGATTTAAAAGAGA
1 TTTTAAAATTTAAAAGAGA
3029684 TTATCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 3 0.17
23 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (21 bp):
TTTTAAAATTTAAAAGAGAAA
Found at i:3033143 original size:19 final size:19
Alignment explanation
Indices: 3033104--3033143 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3033094 ATTTAGGTGA
**
3033104 TTTTAATAAAATATTTTGT
1 TTTTAATAAAATATTAAGT
*
3033123 TTTTATTAAAATATTAAGT
1 TTTTAATAAAATATTAAGT
3033142 TT
1 TT
3033144 AGGGTCTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTAATAAAATATTAAGT
Found at i:3034244 original size:17 final size:17
Alignment explanation
Indices: 3034224--3034261 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3034214 AACATAAGGG
*
3034224 TAAATCTTA-GAACATAA
1 TAAATCTAAGGAACA-AA
3034241 TAAATCTAAGGAACAAA
1 TAAATCTAAGGAACAAA
3034258 TAAA
1 TAAA
3034262 AATAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (17 bp):
TAAATCTAAGGAACAAA
Found at i:3044165 original size:6 final size:6
Alignment explanation
Indices: 3044155--3044206 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
3044145 GGCTAGGCTA
*
3044155 GGGTTT TGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT
1 GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT
3044203 GGGT
1 GGGT
3044207 CAAATTTTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
GGGTTT
Found at i:3044319 original size:3 final size:3
Alignment explanation
Indices: 3044266--3044299 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
3044256 TTGGGCTTTG
3044266 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3044300 CAACAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:3044777 original size:34 final size:34
Alignment explanation
Indices: 3044739--3044822 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 34
3044729 TGTTCATGTG
*
3044739 TAACATCTATTCTTCCACTTAATTACTTTACTAA
1 TAACATGTATTCTTCCACTTAATTACTTTACTAA
* *
3044773 TAACATGTATTCTTCCACTTAATTATTTTACTAG
1 TAACATGTATTCTTCCACTTAATTACTTTACTAA
3044807 TAACATGTATTCTTCC
1 TAACATGTATTCTTCC
3044823 TATGTTGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.45
Consensus pattern (34 bp):
TAACATGTATTCTTCCACTTAATTACTTTACTAA
Found at i:3047183 original size:17 final size:17
Alignment explanation
Indices: 3047149--3047200 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
3047139 ACCGGACAAA
* *
3047149 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
3047166 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
3047183 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
3047198 TTT
1 TTT
3047201 CTACTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:3047497 original size:23 final size:25
Alignment explanation
Indices: 3047449--3047522 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 25
3047439 TATATTTTTG
*
3047449 TATTATAATAATATAATCAATTATAT
1 TATTATAATAATATAAT-AATAATAT
3047475 TATTATAAT-ATATAAT-ATAATAT
1 TATTATAATAATATAATAATAATAT
* **
3047498 TTTTATTTTAAT-TAATAATTAATAT
1 TATTATAATAATATAATAA-TAATAT
3047523 GAGATAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
23 16 0.39
24 3 0.07
25 13 0.32
26 9 0.22
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTATAATAATATAATAATAATAT
Found at i:3047557 original size:63 final size:63
Alignment explanation
Indices: 3047467--3047585 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 63
3047457 TAATATAATC
* * *
3047467 AATTATATTATTATAATATATAATATAATATTTTTATTTTAATTAATAATTAATATGAGATAA
1 AATTATATTATTATAATATATAATATAATATATTTATTTCAAATAATAATTAATATGAGATAA
* *
3047530 AATT-TATTATTATACTAATATAATATAATATATTTGTTTCAAATAATAATTAATAT
1 AATTATATTATTATAAT-ATATAATATAATATATTTATTTCAAATAATAATTAATAT
3047586 AATTTATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
62 11 0.22
63 39 0.78
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (63 bp):
AATTATATTATTATAATATATAATATAATATATTTATTTCAAATAATAATTAATATGAGATAA
Found at i:3047612 original size:63 final size:63
Alignment explanation
Indices: 3047470--3047605 Score: 166
Period size: 63 Copynumber: 2.2 Consensus size: 63
3047460 TATAATCAAT
* * * * *
3047470 TATATTATTATAAT-ATATAATATAATATTTTTATTTTAATTAATAATTAATATGAGATAAAA
1 TATATTATTATACTAATATAATATAATATATTTATTTCAAATAATAATTAATATAAGATAAAA
* * ** *
3047532 TTTATTATTATACTAATATAATATAATATATTTGTTTCAAATAATAATTAATATAATTTATAA
1 TATATTATTATACTAATATAATATAATATATTTATTTCAAATAATAATTAATATAAGATAAAA
*
3047595 TATATTTTTAT
1 TATATTATTAT
3047606 TTTAATAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
62 12 0.20
63 49 0.80
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (63 bp):
TATATTATTATACTAATATAATATAATATATTTATTTCAAATAATAATTAATATAAGATAAAA
Found at i:3050487 original size:59 final size:60
Alignment explanation
Indices: 3050414--3050535 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 60
3050404 ATCTTCCAAA
* * *
3050414 TATAGGGCATTGCTTCGTTTAGT-CATCGACTATTAAAAGTTACAAGATAATC-CATCGAC
1 TATAGGGCATTGCTTCGTTGAGTACATCGAATATTAAAAGTTACAAAATAATCAC-TCGAC
* * * *
3050473 TATAGGGCGTTGCTTTGTTGAGTACTTCGAATATTAAAAGTTACAAAATAGTCACTCGAC
1 TATAGGGCATTGCTTCGTTGAGTACATCGAATATTAAAAGTTACAAAATAATCACTCGAC
3050533 TAT
1 TAT
3050536 TCATATGTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 20 0.37
60 33 0.61
61 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (60 bp):
TATAGGGCATTGCTTCGTTGAGTACATCGAATATTAAAAGTTACAAAATAATCACTCGAC
Found at i:3051927 original size:15 final size:18
Alignment explanation
Indices: 3051905--3051942 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
3051895 CATGTTGCCC
*
3051905 TAATAATAAAATTTTCTA
1 TAATAATACAATTTTCTA
3051923 TAATAATACAATTTTCTA
1 TAATAATACAATTTTCTA
3051941 TA
1 TA
3051943 TGAATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATAATACAATTTTCTA
Found at i:3052569 original size:4 final size:4
Alignment explanation
Indices: 3052560--3052590 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
3052550 TTCAACTACG
3052560 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
3052591 ACATACATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:3056189 original size:6 final size:6
Alignment explanation
Indices: 3056175--3056216 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
3056165 GCAATAAAGA
*
3056175 TCTCTC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC
3056217 CTATTTTCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTCCC
Found at i:3057546 original size:21 final size:21
Alignment explanation
Indices: 3057522--3057577 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
3057512 ATTTGTAATA
*
3057522 TTAATGTGATAGTCCATGATG
1 TTAATGTGATAGTCCACGATG
* * *
3057543 TTAATATAATAGTTCACGATG
1 TTAATGTGATAGTCCACGATG
3057564 TTAATGTGATAGTC
1 TTAATGTGATAGTC
3057578 AATGGTAGAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (21 bp):
TTAATGTGATAGTCCACGATG
Found at i:3057733 original size:20 final size:22
Alignment explanation
Indices: 3057702--3057745 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
3057692 ATATTTAATT
3057702 TAAAACATTAAA-TACTAAAAA
1 TAAAACATTAAATTACTAAAAA
3057723 TAAAA-ATTAAATTACTAAAAA
1 TAAAACATTAAATTACTAAAAA
3057744 TA
1 TA
3057746 CTATTAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAACATTAAATTACTAAAAA
Found at i:3059169 original size:43 final size:43
Alignment explanation
Indices: 3059116--3059531 Score: 416
Period size: 43 Copynumber: 9.7 Consensus size: 43
3059106 AAAAACACCA
* *
3059116 CAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAACGCCG
1 CAAAAGGTTCAGATATATAGCGGCGTTTTTGGAACAAACGCCG
* * * * * * *
3059159 CAAAAGGTTGATATCTATAGAGGCGTTTTTGGAACTAATGTCG
1 CAAAAGGTTCAGATATATAGCGGCGTTTTTGGAACAAACGCCG
* * * **
3059202 CAAAAGGTTGATATCTATAGCGGCGTTTGTTCCAA-AAACGCCG
1 CAAAAGGTTCAGATATATAGCGGCGTTT-TTGGAACAAACGCCG
* * *
3059245 CAATAGG-TCACATATATAGCGACGTTTTTTGGAACAAACGCCG
1 CAAAAGGTTCAGATATATAGCGGCG-TTTTTGGAACAAACGCCG
* *
3059288 CAATAGG-TCAGATAGATAGCGGCGTTTTTTGGAACAAACGCCG
1 CAAAAGGTTCAGATATATAGCGGCG-TTTTTGGAACAAACGCCG
* *
3059331 CAATAGGTT-AGATAGATAGCGGCGTTTTTTGGAACAAACGCCG
1 CAAAAGGTTCAGATATATAGCGGCG-TTTTTGGAACAAACGCCG
* *
3059374 CAAAAGG-TCAGATCTATAGCGGCGTTTTT-TATACAAACGCCG
1 CAAAAGGTTCAGATATATAGCGGCGTTTTTGGA-ACAAACGCCG
* * * * *
3059416 CAAAATGTTGATATCTATAGCGGCGTTTTTGGAACAAACGACG
1 CAAAAGGTTCAGATATATAGCGGCGTTTTTGGAACAAACGCCG
* * * *
3059459 CAATAGGTT-AGATAGATAGCGGCGTTTTTTTAGAACAAACGTCG
1 CAAAAGGTTCAGATATATAGCGGCG--TTTTTGGAACAAACGCCG
*
3059503 CAAAAGG-TCAGATATATAGCGACGTTTTT
1 CAAAAGGTTCAGATATATAGCGGCGTTTTT
3059532 TTTATACAAA
Statistics
Matches: 322, Mismatches: 40, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.00
42 56 0.17
43 224 0.70
44 41 0.13
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
CAAAAGGTTCAGATATATAGCGGCGTTTTTGGAACAAACGCCG
Found at i:3059276 original size:129 final size:129
Alignment explanation
Indices: 3059116--3059532 Score: 515
Period size: 129 Copynumber: 3.2 Consensus size: 129
3059106 AAAAACACCA
* * * *
3059116 CAAAAGGTTGAGATCTATAGCGGCG-TTTTTGGAACAAACGCCGCAAAAGGTTGATATCTATAGA
1 CAAAAGG-TCAGATATATAGCGACGTTTTTTGGAACAAACGCCGCAAAAGGTTGATATCTATAGC
* * * * * * **
3059180 GGCGTTTTTGGAACTAATGTCGCAAAAGGTT-GATATCTATAGCGGCGTTTGTTCCAA-AAACGC
65 GGCGTTTTTGGAACAAACGACGCAATAGGTTAGATA--GATAGCGGCGTTTTTTAGAACAAACGC
3059243 CG
128 CG
* * * * *
3059245 CAATAGGTCACATATATAGCGACGTTTTTTGGAACAAACGCCGCAATAGGTCAGATA--GATAGC
1 CAAAAGGTCAGATATATAGCGACGTTTTTTGGAACAAACGCCGCAAAAGGT-TGATATCTATAGC
* *
3059308 GGCGTTTTTTGGAACAAACGCCGCAATAGGTTAGATAGATAGCGGCGTTTTTTGGAACAAACGCC
65 GGCG-TTTTTGGAACAAACGACGCAATAGGTTAGATAGATAGCGGCGTTTTTTAGAACAAACGCC
3059373 G
129 G
* * *
3059374 CAAAAGGTCAGATCTATAGCGGCGTTTTTT--ATACAAACGCCGCAAAATGTTGATATCTATAGC
1 CAAAAGGTCAGATATATAGCGACGTTTTTTGGA-ACAAACGCCGCAAAAGGTTGATATCTATAGC
*
3059437 GGCGTTTTTGGAACAAACGACGCAATAGGTTAGATAGATAGCGGCGTTTTTTTAGAACAAACGTC
65 GGCGTTTTTGGAACAAACGACGCAATAGGTTAGATAGATAGCGGCG-TTTTTTAGAACAAACGCC
3059502 G
129 G
3059503 CAAAAGGTCAGATATATAGCGACGTTTTTT
1 CAAAAGGTCAGATATATAGCGACGTTTTTT
3059533 TTATACAAAC
Statistics
Matches: 249, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
127 5 0.02
128 94 0.38
129 142 0.57
130 8 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (129 bp):
CAAAAGGTCAGATATATAGCGACGTTTTTTGGAACAAACGCCGCAAAAGGTTGATATCTATAGCG
GCGTTTTTGGAACAAACGACGCAATAGGTTAGATAGATAGCGGCGTTTTTTAGAACAAACGCCG
Found at i:3060225 original size:54 final size:54
Alignment explanation
Indices: 3060107--3060225 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 54
3060097 TTCACCTAAA
* * *
3060107 GCGTGGGCACAACTTATTCATCCTGAGCTATCGCAGAAGAAGCCTTCAGTTAAG
1 GCGTGGGCACGACTTATTCATCCTGAGCTATCGCAAAAGAAGACTTCAGTTAAG
* * *
3060161 GCGTGGGCACGACTTATTCATCGTGAGTTATCGCAAAAGAAGATTTCAGTTAAG
1 GCGTGGGCACGACTTATTCATCCTGAGCTATCGCAAAAGAAGACTTCAGTTAAG
3060215 GCGTGGGCACG
1 GCGTGGGCACG
3060226 CCAAATATCG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (54 bp):
GCGTGGGCACGACTTATTCATCCTGAGCTATCGCAAAAGAAGACTTCAGTTAAG
Found at i:3060603 original size:16 final size:16
Alignment explanation
Indices: 3060574--3060668 Score: 58
Period size: 16 Copynumber: 6.3 Consensus size: 16
3060564 TAATAATTCA
* *
3060574 TTATTTTATAAATATT
1 TTATTTTTTTAATATT
3060590 TTATTTTTTTAATATT
1 TTATTTTTTTAATATT
* ** *
3060606 ATATACTTTTAATA-A
1 TTATTTTTTTAATATT
*
3060621 TTA--ATTTT--TATT
1 TTATTTTTTTAATATT
*
3060633 TTAGTTTTTT-ATATT
1 TTATTTTTTTAATATT
* *
3060648 TAATTTTTTGAATATT
1 TTATTTTTTTAATATT
3060664 TTATT
1 TTATT
3060669 AATTGTTTAT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
11 2 0.03
12 3 0.05
13 4 0.07
14 4 0.07
15 13 0.22
16 34 0.57
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (16 bp):
TTATTTTTTTAATATT
Found at i:3060641 original size:13 final size:14
Alignment explanation
Indices: 3060589--3060715 Score: 51
Period size: 16 Copynumber: 8.4 Consensus size: 14
3060579 TTATAAATAT
*
3060589 TTTATTTTTTTAATA
1 TTTAATTTTTT-ATA
* *
3060604 TTATATACTTTTAATA
1 TT-TA-ATTTTTTATA
*
3060620 ATTAA-TTTTTAT-
1 TTTAATTTTTTATA
*
3060632 TTTAGTTTTTTATA
1 TTTAATTTTTTATA
3060646 TTTAATTTTTTGAATA
1 TTTAATTTTTT--ATA
*
3060662 TTTTATTAATTGTTTATA
1 ---T-TTAATTTTTTATA
* *
3060680 TTTTTATATTTTATA
1 -TTTAATTTTTTATA
*
3060695 TTTAATTAATTTTTTA
1 TTTAATT--TTTTATA
3060711 TTTAA
1 TTTAA
3060716 AAAATAAATT
Statistics
Matches: 85, Mismatches: 15, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
12 3 0.04
13 13 0.15
14 16 0.19
15 14 0.16
16 22 0.26
17 4 0.05
18 3 0.04
19 1 0.01
20 9 0.11
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTAATTTTTTATA
Found at i:3060712 original size:16 final size:16
Alignment explanation
Indices: 3060660--3060715 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
3060650 ATTTTTTGAA
*
3060660 TATTTTATTAATTGTTT
1 TATTTAATTAATT-TTT
*
3060677 ATATTT--TTATATTTTA
1 -TATTTAATTA-ATTTTT
3060693 TATTTAATTAATTTTT
1 TATTTAATTAATTTTT
3060709 TATTTAA
1 TATTTAA
3060716 AAAATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 5 0.15
16 17 0.52
17 6 0.18
18 5 0.15
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTTAATTAATTTTT
Found at i:3061603 original size:15 final size:15
Alignment explanation
Indices: 3061585--3061671 Score: 86
Period size: 15 Copynumber: 5.5 Consensus size: 15
3061575 TAATAAGGTT
3061585 ATTTATTATAAAATA
1 ATTTATTATAAAATA
*
3061600 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
*
3061615 AATTATTATAAAATA
1 ATTTATTATAAAATA
*
3061630 TGTTGATTTATTTTAAAATA
1 -----ATTTATTATAAAATA
*
3061650 ATTTATT-TTAAATA
1 ATTTATTATAAAATA
3061664 ATTTATTA
1 ATTTATTA
3061672 GTATGGATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
14 13 0.22
15 34 0.57
20 13 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:3061688 original size:32 final size:32
Alignment explanation
Indices: 3061650--3061747 Score: 126
Period size: 32 Copynumber: 3.4 Consensus size: 32
3061640 TTTTAAAATA
3061650 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
3061682 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
3061704 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
3061736 ATTTATTTTAAA
1 ATTTATTTTAAA
3061748 ATATGGATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
22 14 0.25
23 4 0.07
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.07
32 26 0.46
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:3061689 original size:22 final size:22
Alignment explanation
Indices: 3061673--3061715 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3061663 AATTTATTAG
3061673 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3061695 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3061716 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3061713 original size:54 final size:53
Alignment explanation
Indices: 3061650--3062131 Score: 255
Period size: 54 Copynumber: 8.8 Consensus size: 53
3061640 TTTTAAAATA
3061650 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTG
3061704 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * *
3061758 ATTTATTATT--GTAGTTGTA-TGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATT-TTAAATAATT-TATTGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
* ** ** * ** * * *
3061816 ATTTACTTTAAA-ATATGGATTG-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTGTATGGA-TTGATTTATTTTA-AAATATGGATTG
** ** * ** * * *
3061870 ATTTATTTTAAA-ATATGGATTG-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTGTATGGA-TTGATTTATTTTA-AAATATGGATTG
3061924 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA-TTGTATGGATTG----ATTTATTTTAAAATATGGATTG
*
3061982 ATTTA--TT--AT--TGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
3062040 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTTAAAATATGGATTG
*
3062094 ATTTA--TT--AT--TGTAGTTGTATGGATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTTAAA
3062132 TAATTTATTA
Statistics
Matches: 359, Mismatches: 33, Indels: 78
0.76 0.07 0.17
Matches are distributed among these distances:
48 36 0.10
49 2 0.01
50 4 0.01
52 27 0.08
53 9 0.03
54 160 0.45
55 11 0.03
56 6 0.02
57 7 0.02
58 48 0.13
59 15 0.04
60 4 0.01
62 4 0.01
63 2 0.01
64 24 0.07
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (53 bp):
ATTTATTTTAAATAATTTATTGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:3061799 original size:134 final size:132
Alignment explanation
Indices: 3061650--3061988 Score: 525
Period size: 134 Copynumber: 2.5 Consensus size: 132
3061640 TTTTAAAATA
3061650 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
3061715 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT-TA-TTGTATGA
3061780 ATTG
129 ATTG
*
3061784 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTACTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
3061849 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA---T---T-ATTTATT-
*
3061914 GTATGGATTG
123 GTATGAATTG
*
3061924 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTG----ATTTATTTTAAAATATGGATTGATTTATT
3061989 ATTGTAGTTG
Statistics
Matches: 189, Mismatches: 4, Indels: 14
0.91 0.02 0.07
Matches are distributed among these distances:
134 112 0.59
137 1 0.01
139 2 0.01
140 43 0.23
141 3 0.02
144 28 0.15
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (132 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTTATTGTATGAAT
TG
Found at i:3061816 original size:32 final size:32
Alignment explanation
Indices: 3061774--3062083 Score: 308
Period size: 32 Copynumber: 10.7 Consensus size: 32
3061764 TATTGTAGTT
*
3061774 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
3061806 GTATGGATTGATTTA-CTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
3061829 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
3061860 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
3061883 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
3061914 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
3061946 GTATGGATTGATTTA-TTT--AT--TTTA-AA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
3061972 ATATGGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
3061998 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
3062030 GTATGAATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
3062062 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
3062084 ATATGGATTG
Statistics
Matches: 235, Mismatches: 14, Indels: 58
0.77 0.05 0.19
Matches are distributed among these distances:
22 28 0.12
23 7 0.03
25 9 0.04
26 34 0.14
27 4 0.02
28 8 0.03
29 4 0.02
30 2 0.01
31 12 0.05
32 127 0.54
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:3061832 original size:22 final size:22
Alignment explanation
Indices: 3061807--3061849 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3061797 AATTTATTAG
3061807 TATGGATTGATTTACTTTAAAA
1 TATGGATTGATTTACTTTAAAA
*
3061829 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTACTTTAAA
3061850 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTACTTTAAAA
Found at i:3061886 original size:22 final size:22
Alignment explanation
Indices: 3061861--3061903 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3061851 AATTTATTAG
3061861 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3061883 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3061904 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3062022 original size:116 final size:112
Alignment explanation
Indices: 3061695--3062163 Score: 666
Period size: 112 Copynumber: 4.2 Consensus size: 112
3061685 TATTTTAAAA
*
3061695 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
3061760 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
* * * * ** * * *
3061807 TATGGATTGATTTACTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGAT
1 TATGGATTGATTTA-TTTTAAATA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGAT
***
3061868 TGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAG
62 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
3061915 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTATTTTAAAATATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTG----ATTTATTTTAAAATATGGAT
3061980 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
62 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
*
3062031 TATGAATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
3062096 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
*
3062143 TATTGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3062164 ATATGGATTG
Statistics
Matches: 312, Mismatches: 29, Indels: 32
0.84 0.08 0.09
Matches are distributed among these distances:
104 11 0.04
107 8 0.03
108 50 0.16
109 2 0.01
110 4 0.01
111 1 0.00
112 134 0.43
113 9 0.03
114 4 0.01
115 2 0.01
116 87 0.28
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (112 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:3062027 original size:14 final size:14
Alignment explanation
Indices: 3062008--3062061 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
3061998 GTATGGATTG
3062008 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
3062022 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
3062040 ATTTATTTTAAATA
1 ATTTATTTTAAATA
3062054 ATTTATTT
1 ATTTATTT
3062062 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:3062148 original size:54 final size:54
Alignment explanation
Indices: 3062060--3062195 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 54
3062050 AATAATTTAT
*
3062060 TTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTA
1 TTGTATGGATTGATTTATTTTAAATAATTTATTAGGATTGATTGATTTATTGTA
* *
3062107 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTA
1 -TTGTATGGATTGATTTATTTTAAATAATTTATTAGGATTGATTGATTTATTGTA
***
3062162 AAATATGGATTGATTTATTTTAAATAATTTATTA
1 TTGTATGGATTGATTTATTTTAAATAATTTATTA
3062196 TTGTAGTTGT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
48 21 0.28
49 2 0.03
50 2 0.03
52 2 0.03
53 1 0.01
54 40 0.53
55 7 0.09
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (54 bp):
TTGTATGGATTGATTTATTTTAAATAATTTATTAGGATTGATTGATTTATTGTA
Done.