Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_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: 2117680
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 11
Found at i:2004100 original size:83 final size:84
Alignment explanation
Indices: 2003968--2004171 Score: 286
Period size: 83 Copynumber: 2.4 Consensus size: 84
2003958 CGACACACGC
* * * * **
2003968 ATGTGTGTCATCTT-TTTTAATGACGTGTGCTTCAATGACACGCCATGTAAGTCATACATGCGTG
1 ATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATG
*
2004032 TCACAGATTTATG-ACACAA
65 TCACAAATTTATGAACACAA
2004051 ATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATGT
1 ATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATGT
*
2004116 CATAAATTTATGACACACAA
66 CACAAATTTATGA-ACACAA
* *
2004136 ATCTGTGTCATCTTCATTTATGACAGGGGCTTCAAT
1 ATGTGTGTCATCTTCATTTATGACGGGGGCTTCAAT
2004172 TACGCTCAAT
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
83 65 0.60
84 3 0.03
85 40 0.37
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (84 bp):
ATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATGT
CACAAATTTATGAACACAA
Found at i:2004182 original size:85 final size:83
Alignment explanation
Indices: 2003971--2004207 Score: 280
Period size: 85 Copynumber: 2.8 Consensus size: 83
2003961 CACACGCATG
* * * *
2003971 TGTGTCATCTT-TTTTAATGAC-GTGTGCTTCAATGACACGCCATGTAAGTCATACATGCGTGTC
1 TGTGTCATCTTCATTT-ATGACAG-GGGCTTCAATGACACGCAATGTAAGTCATACATGAGTGTC
* * *
2004034 ACAGATTTATGACACAAATG
64 ATAAATTTATGACACAAATC
* *
2004054 TGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGAATGTCAT
1 TGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATACATGAGTGTCAT
2004119 AAATTTATGACACACAAATC
66 AAATTTATG--ACACAAATC
* * * ** * *
2004139 TGTGTCATCTTCATTTATGACAGGGGCTTCAATTACGCTCAATGTGCGTCATAAATGTGTGTCAT
1 TGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATACATGAGTGTCAT
2004204 AAAT
66 AAAT
2004208 GTGCGTCATA
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
83 61 0.46
84 4 0.03
85 68 0.51
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (83 bp):
TGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATACATGAGTGTCAT
AAATTTATGACACAAATC
Found at i:2004197 original size:13 final size:13
Alignment explanation
Indices: 2004179--2004243 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
2004169 AATTACGCTC
2004179 AATGTGCGTCATA
1 AATGTGCGTCATA
*
2004192 AATGTGTGTCATA
1 AATGTGCGTCATA
2004205 AATGTGCGTCATA
1 AATGTGCGTCATA
*
2004218 AATGTGTGTCATA
1 AATGTGCGTCATA
2004231 AATGTGCGTCATA
1 AATGTGCGTCATA
2004244 GATTTATGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (13 bp):
AATGTGCGTCATA
Found at i:2004215 original size:26 final size:26
Alignment explanation
Indices: 2004179--2004243 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
2004169 AATTACGCTC
2004179 AATGTGCGTCATAAATGTGTGTCATA
1 AATGTGCGTCATAAATGTGTGTCATA
2004205 AATGTGCGTCATAAATGTGTGTCATA
1 AATGTGCGTCATAAATGTGTGTCATA
2004231 AATGTGCGTCATA
1 AATGTGCGTCATA
2004244 GATTTATGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (26 bp):
AATGTGCGTCATAAATGTGTGTCATA
Found at i:2007387 original size:2 final size:2
Alignment explanation
Indices: 2007382--2007453 Score: 135
Period size: 2 Copynumber: 36.0 Consensus size: 2
2007372 AGTATATACT
*
2007382 TA TA TA AA 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
2007424 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
2007454 ACTATACATT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2007459 original size:8 final size:7
Alignment explanation
Indices: 2007368--2007459 Score: 73
Period size: 8 Copynumber: 12.3 Consensus size: 7
2007358 ATGCATACAT
2007368 TATAAGTA
1 TATAA-TA
*
2007376 TATACTTA
1 TATA-ATA
2007384 TATAA-A
1 TATAATA
2007390 TAT-ATA
1 TATAATA
2007396 TAT-ATA
1 TATAATA
2007402 TATATATA
1 TATA-ATA
2007410 TATATATA
1 TATA-ATA
2007418 TATATATA
1 TATA-ATA
2007426 TATATATA
1 TATA-ATA
2007434 TATATATA
1 TATA-ATA
2007442 TATATATA
1 TATA-ATA
2007450 TATAACTA
1 TATAA-TA
2007458 TA
1 TA
2007460 CATTTTACTT
Statistics
Matches: 77, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
5 1 0.01
6 14 0.18
7 1 0.01
8 61 0.79
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (7 bp):
TATAATA
Found at i:2007573 original size:2 final size:2
Alignment explanation
Indices: 2007561--2007701 Score: 51
Period size: 2 Copynumber: 70.0 Consensus size: 2
2007551 ATATCTAAAA
* * * * * * *
2007561 AT AT CT AT AT AT AG GT AT GT AT AT AA AT AT AT AA AA 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
* * *
2007603 AT A- AGT AT AA AGT AT A- AA AT AT A- AGT AT AT GT AT AT AT A-
1 AT AT A-T AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * *
2007642 AGT AT AT AT GT CT GAT GT AT AT A- AGT AT AT AC AT A- AGT AT AT
1 A-T AT AT AT AT AT -AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT
2007684 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2007702 CATTAAACAT
Statistics
Matches: 102, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
1 6 0.06
2 89 0.87
3 7 0.07
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.40
Consensus pattern (2 bp):
AT
Found at i:2008032 original size:41 final size:42
Alignment explanation
Indices: 2007987--2008081 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
2007977 TTGTCAAAAA
*
2007987 TAAAATAAAATAAAATTT-CCCTCTACCCTCTTCTAAATTCC
1 TAAAAAAAAATAAAATTTCCCCTCTACCCTCTTCTAAATTCC
* *
2008028 TAAAAAAAAATCAAATTTCCCCTCTTCCCTCTTCTAAATT-C
1 TAAAAAAAAATAAAATTTCCCCTCTACCCTCTTCTAAATTCC
2008069 TCAAAAAATAAAT
1 T-AAAAAA-AAAT
2008082 TTTTCCCTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
41 18 0.38
42 26 0.54
43 4 0.08
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (42 bp):
TAAAAAAAAATAAAATTTCCCCTCTACCCTCTTCTAAATTCC
Found at i:2008682 original size:79 final size:79
Alignment explanation
Indices: 2008527--2008683 Score: 217
Period size: 79 Copynumber: 2.0 Consensus size: 79
2008517 TTATTAATTT
* * *
2008527 AATTATCATAATTAACAATTTATATTAACTTTTAAAGAGTAATCATATTAATTATCATAGTTTAT
1 AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
*
2008592 TTAATTGTCAAAAA
66 TTAAATGTCAAAAA
* * * * *
2008606 AATTATTATAACTAATAATTTGTTTTAACTTTTAAAAAGAAATCATATTAATTATCATGGTTTAT
1 AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
2008671 TATAAAT-TCAAAA
66 T-TAAATGTCAAAA
2008684 TCTCACAACT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 64 0.94
80 4 0.06
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (79 bp):
AATTATCATAACTAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTAT
TTAAATGTCAAAAA
Found at i:2010677 original size:20 final size:21
Alignment explanation
Indices: 2010632--2010677 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
2010622 ATCACATCGA
2010632 ATTCATAAATAATTTTAGATG
1 ATTCATAAATAATTTTAGATG
* *
2010653 TTTCAT-AATGATTTCTAGAT-
1 ATTCATAAATAATTT-TAGATG
2010673 ATTCA
1 ATTCA
2010678 ATTGAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (21 bp):
ATTCATAAATAATTTTAGATG
Found at i:2014815 original size:32 final size:29
Alignment explanation
Indices: 2014763--2014824 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
2014753 TTTAAACTAT
*
2014763 AAAACAATTTATATATAAAATACAAGTTCA
1 AAAAAAATTTATATATAAAATACAA-TTCA
*
2014793 AAAAAAATTTATATATTAAAAATAGAATTCA
1 AAAAAAATTTATATA-T-AAAATACAATTCA
2014824 A
1 A
2014825 CAATATCCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 14 0.50
31 6 0.21
32 8 0.29
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAAAATTTATATATAAAATACAATTCA
Found at i:2015420 original size:32 final size:32
Alignment explanation
Indices: 2015384--2015515 Score: 142
Period size: 32 Copynumber: 4.1 Consensus size: 32
2015374 GTGCCAACCT
* *
2015384 AAGGGAATATCTTGGGGCCTGAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTTAGAGCCTACCC
* * * *
2015416 AAGGGAGTACCTTAGGGCCTAAGAGCCTATCC
1 AAGGGAATACCTTGGGGCCTTAGAGCCTACCC
*
2015448 AA-GGAAGTACCTTGGGGCCTTAGAGCCTACCT
1 AAGGGAA-TACCTTGGGGCCTTAGAGCCTACCC
* * *
2015480 AAAGAAATGA-TTTGGGGCCTTAGAGCCTACCC
1 AAGGGAAT-ACCTTGGGGCCTTAGAGCCTACCC
2015512 AAGG
1 AAGG
2015516 TCACTTAGGT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
31 3 0.04
32 76 0.92
33 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (32 bp):
AAGGGAATACCTTGGGGCCTTAGAGCCTACCC
Found at i:2023621 original size:67 final size:69
Alignment explanation
Indices: 2023473--2023632 Score: 173
Period size: 67 Copynumber: 2.3 Consensus size: 69
2023463 TTACATCGCG
* * * * *
2023473 ACTCGACTCGTGCTTGTTAAAGAAAGGTTTTGTTCACTCGACTCGTTGCTCTTTAAGCTCGTTAA
1 ACTCGACTCGTGCTCGTT-AAGAAA-GTTTTGTTCACGCGACTCGTTACTCGTTAAGCTCATTAA
2023538 AATTTC
64 AATTTC
** * *
2023544 ACTAAACTCGTGCTCGTTAAGAAA-TTTTGTT-GCGCGACTCGTTACTCGTTAAGCTCATTAAAC
1 ACTCGACTCGTGCTCGTTAAGAAAGTTTTGTTCACGCGACTCGTTACTCGTTAAGCTCATTAAAA
2023607 TCTT-
66 T-TTC
*
2023611 ACTCGTCTCGTTGCTCGTTAAG
1 ACTCGACTCG-TGCTCGTTAAG
2023633 TTCACCGAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
67 34 0.45
68 20 0.27
70 6 0.08
71 15 0.20
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (69 bp):
ACTCGACTCGTGCTCGTTAAGAAAGTTTTGTTCACGCGACTCGTTACTCGTTAAGCTCATTAAAA
TTTC
Found at i:2027404 original size:16 final size:15
Alignment explanation
Indices: 2027383--2027417 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
2027373 TTAGAACTTC
2027383 TAATGTAATAAAAAT
1 TAATGTAATAAAAAT
2027398 ATAATGTAATAAAAAT
1 -TAATGTAATAAAAAT
2027414 TAAT
1 TAAT
2027418 ATTGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (15 bp):
TAATGTAATAAAAAT
Found at i:2030179 original size:3 final size:3
Alignment explanation
Indices: 2030173--2030210 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2030163 TTAAAATAAT
2030173 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2030211 TGTAAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2031232 original size:21 final size:21
Alignment explanation
Indices: 2031203--2031255 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2031193 ATTCTGACTA
2031203 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
2031224 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
2031245 TCGCAATGCGA
1 TCGCATTGCGA
2031256 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:2031270 original size:20 final size:20
Alignment explanation
Indices: 2031245--2031318 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
2031235 TTTTCCTAAT
2031245 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
2031265 TCGCAACGTGAATTTGAAAAA
1 TCGCAATGCGAATACG-TAAA
*
2031286 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
2031306 TCGCAATACGAAT
1 TCGCAATGCGAAT
2031319 CTGACTATCG
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:2031602 original size:22 final size:22
Alignment explanation
Indices: 2031515--2031589 Score: 105
Period size: 22 Copynumber: 3.4 Consensus size: 22
2031505 GGCGACATCC
*
2031515 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCGCCGACGAAATCA
*
2031537 GTCCCCATCGCCGACGATATCA
1 GTCCCCATCGCCGACGAAATCA
* *
2031559 GTCTCCATCGCCGACGATATCA
1 GTCCCCATCGCCGACGAAATCA
*
2031581 GTCTCCATC
1 GTCCCCATC
2031590 TCTGGCGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.23, C:0.40, G:0.16, T:0.21
Consensus pattern (22 bp):
GTCCCCATCGCCGACGAAATCA
Found at i:2031977 original size:33 final size:34
Alignment explanation
Indices: 2031927--2032000 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
2031917 ACTATCGCAA
** *
2031927 TGCGATTCTGTCATTGCGATTTTC-ATTTCGCGT
1 TGCGATTCTGTCATTGCGATAGTCAAATTCGCGT
*
2031960 TGCGATTCT-TGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CATTGCGATAGTCAAATTCGCGT
2031994 TGCGATT
1 TGCGATT
2032001 TTCATTTTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 19 0.54
34 15 0.43
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (34 bp):
TGCGATTCTGTCATTGCGATAGTCAAATTCGCGT
Found at i:2032010 original size:20 final size:19
Alignment explanation
Indices: 2031940--2032021 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 19
2031930 GATTCTGTCA
2031940 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
2031959 TTGCGA--TTC--TT-GCG
1 TTGCGATTTTCATTTCGCG
** *
2031973 TTGCGATAGTCAAATTCGCG
1 TTGCGATTTTC-ATTTCGCG
*
2031993 TTGCGATTTTCATTTTCGTG
1 TTGCGATTTTCA-TTTCGCG
2032013 TTGCGATTT
1 TTGCGATTT
2032022 AAAGTTTCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
14 9 0.18
15 2 0.04
16 2 0.04
17 3 0.06
19 9 0.18
20 26 0.51
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:2032029 original size:20 final size:20
Alignment explanation
Indices: 2031987--2032029 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2031977 GATAGTCAAA
** *
2031987 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTAAAGT
*
2032007 TTCGTGTTGCGATTTAAAGT
1 TTCGCGTTGCGATTTAAAGT
2032027 TTC
1 TTC
2032030 AGAAACTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.21, T:0.49
Consensus pattern (20 bp):
TTCGCGTTGCGATTTAAAGT
Found at i:2033911 original size:20 final size:20
Alignment explanation
Indices: 2033886--2033937 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2033876 AGAATAGTTT
*
2033886 ACTATCGCAATGCGAAAATG
1 ACTATCGCAACGCGAAAATG
2033906 ACTATCGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAATG
2033926 ACTATCGCAACG
1 ACTATCGCAACG
2033938 AGAGAATCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (20 bp):
ACTATCGCAACGCGAAAATG
Found at i:2033966 original size:33 final size:33
Alignment explanation
Indices: 2033909--2034034 Score: 128
Period size: 33 Copynumber: 3.8 Consensus size: 33
2033899 GAAAATGACT
* ** *
2033909 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCG-AAATGAAAATCGCAACGAAAGA
* *
2033943 ATCGTAATGCGAAATGAAAATCGCAAC-AACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAA-AGA
** *
2033976 ATCGCAATGCGAAAATGACTATCGCAATGAAAGA
1 ATCGCAATGCG-AAATGAAAATCGCAACGAAAGA
*
2034010 ATCGCAATGCGAAATTAAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCA
2034035 TTGCGATTCT
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
32 1 0.01
33 37 0.49
34 35 0.47
35 2 0.03
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAGA
Found at i:2034000 original size:34 final size:33
Alignment explanation
Indices: 2033909--2034023 Score: 133
Period size: 34 Copynumber: 3.4 Consensus size: 33
2033899 GAAAATGACT
* *
2033909 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAAC-AAAGA
* ** *
2033943 ATCGTAATGCG-AAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAAATGACTATCGCAACAA-AGA
*
2033976 ATCGCAATGCGAAAATGACTATCGCAATGAAAGA
1 ATCGCAATGCGAAAATGACTATCGCAA-CAAAGA
2034010 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
2034024 TTAAAATCGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 1 0.01
33 26 0.39
34 38 0.57
35 2 0.03
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAAATGACTATCGCAACAAAGA
Found at i:2034019 original size:67 final size:67
Alignment explanation
Indices: 2033909--2034034 Score: 207
Period size: 67 Copynumber: 1.9 Consensus size: 67
2033899 GAAAATGACT
* *
2033909 ATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGTAATGCGAAATGAAAATCGCAACAACA
1 ATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACAACA
2033974 AA
66 AA
* * *
2033976 ATCGCAATGCGAAAATGACTATCGCAATGAAAGAATCGCAATGCGAAATTAAAATCGCA
1 ATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCA
2034035 TTGCGATTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (67 bp):
ATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACAACA
AA
Found at i:2034074 original size:20 final size:20
Alignment explanation
Indices: 2034047--2034202 Score: 133
Period size: 20 Copynumber: 8.4 Consensus size: 20
2034037 GCGATTCTCT
2034047 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
2034067 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
2034087 CGTTGCGAT--T--TTGTT--
1 CGTTGCGATAGTCATT-TTCG
**
2034102 -GTTGCGATTTTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
* *
2034120 CATTGCGAT--TC----TCT
1 CGTTGCGATAGTCATTTTCG
*
2034134 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
*
2034154 CGTTACGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
2034174 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCG
2034194 CGTTGCGAT
1 CGTTGCGAT
2034203 TTTAAGTTTC
Statistics
Matches: 111, Mismatches: 11, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
14 18 0.16
16 7 0.06
17 5 0.05
18 1 0.01
19 7 0.06
20 73 0.66
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.43
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:2034149 original size:33 final size:33
Alignment explanation
Indices: 2034069--2034150 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
2034059 CATTTTCGCA
* * * *
2034069 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCA-TTTCGCATTGCGATTCTCTCG
**
2034103 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
2034136 TTGCGATAGTCATTT
1 TTGCGATAGTCATTT
2034151 TTGCGTTACG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
Found at i:2034777 original size:21 final size:21
Alignment explanation
Indices: 2034686--2034790 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
2034676 GACTCACCTG
* *
2034686 TCATCATTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
2034708 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
2034728 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
2034749 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
2034770 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
2034791 CCAACATTCT
Statistics
Matches: 62, Mismatches: 20, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 3 0.05
21 58 0.94
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:2034783 original size:42 final size:42
Alignment explanation
Indices: 2034711--2034793 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
2034701 CCTCCCCTAT
*
2034711 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
2034753 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
2034794 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:2036201 original size:14 final size:14
Alignment explanation
Indices: 2036169--2036203 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2036159 GATTGTTTAA
2036169 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
2036183 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
2036197 TTGATTT
1 TTGATTT
2036204 ATTTAATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2036361 original size:33 final size:33
Alignment explanation
Indices: 2036311--2036391 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
2036301 AAAACAGACT
* ** *
2036311 ATCGCAACGCGGAAATGACTATCGCAATGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
2036345 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2036378 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
2036392 CTAATTTCGC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 33 0.79
34 9 0.21
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2036446 original size:34 final size:34
Alignment explanation
Indices: 2036401--2036496 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
2036391 ACTAATTTCG
2036401 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
2036435 CTTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
2036468 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
2036497 AGTCAATTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:2036554 original size:40 final size:40
Alignment explanation
Indices: 2036470--2036556 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
2036460 GATTCTCTCG
* *
2036470 TTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCGCG
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCACA
*
2036510 TTGCGATAGTCATTTCCGTGTTGCGATAGTCATATT-CACA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCCACA
2036550 TTGCGAT
1 TTGCGAT
2036557 TTCCGCGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 40 0.93
41 3 0.07
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCACA
Found at i:2036556 original size:20 final size:20
Alignment explanation
Indices: 2036468--2036542 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
2036458 GCGATTCTCT
2036468 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2036488 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
2036508 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2036528 TGTTGCGATAGTCAT
1 CGTTGCGATAGTCAT
2036543 ATTCACATTG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:2039019 original size:24 final size:24
Alignment explanation
Indices: 2038985--2039038 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2038975 CTGAAAAATC
2038985 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2039009 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2039033 ATCAAA
1 ATCAAA
2039039 TTTCGAATAC
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:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2039052 original size:24 final size:24
Alignment explanation
Indices: 2038985--2039052 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
2038975 CTGAAAAATC
* * *
2038985 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
2039009 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
2039033 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
2039053 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:2041291 original size:17 final size:17
Alignment explanation
Indices: 2041258--2041302 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
2041248 CAAACAAATT
*
2041258 CAAATTCAATCAATCCA
1 CAAATTCAAACAATCCA
*
2041275 CAAATTCAAACATTCCA
1 CAAATTCAAACAATCCA
*
2041292 AAATATTCAAA
1 CAA-ATTCAAA
2041303 ATGTTAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAATTCAAACAATCCA
Found at i:2043303 original size:20 final size:21
Alignment explanation
Indices: 2043256--2043317 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
2043246 TCCCCTGTGG
2043256 GGGGGTAATCGGTTCCCCTTCAAA
1 GGGGG-AATCGGTT-CCC-TCAAA
2043280 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
2043300 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
2043318 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 8 0.22
24 5 0.14
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:2049140 original size:20 final size:20
Alignment explanation
Indices: 2049096--2049143 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2049086 GAAATTCAGT
*
2049096 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCGC
* *
2049116 GTTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCGC
2049136 ATTGCGAT
1 ATTGCGAT
2049144 TTACGTATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCGC
Found at i:2049183 original size:21 final size:21
Alignment explanation
Indices: 2049159--2049204 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2049149 TATTCGCATT
2049159 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
2049180 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
2049201 GCGA
1 GCGA
2049205 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2050667 original size:39 final size:38
Alignment explanation
Indices: 2050619--2050740 Score: 115
Period size: 39 Copynumber: 3.2 Consensus size: 38
2050609 AATATTTTAA
2050619 AAAAATTTAGAATGTTAACGTGAAATAATTTAAGAAATT
1 AAAAATTTAGAATGTTAA-GTGAAATAATTTAAGAAATT
* *
2050658 AAAAATTTAGAATATT-A-TGATACTAAAATTTAAGAAATT
1 AAAAATTTAGAATGTTAAGTGA-A--ATAATTTAAGAAATT
** * *
2050697 AGTAATTTAGAATGTTAGAGTGTAATAATTTGA-AAATT
1 AAAAATTTAGAATGTTA-AGTGAAATAATTTAAGAAATT
*
2050735 ATAAAT
1 AAAAAT
2050741 AAACATTTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
36 3 0.04
37 1 0.01
38 10 0.15
39 49 0.73
41 2 0.03
42 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (38 bp):
AAAAATTTAGAATGTTAAGTGAAATAATTTAAGAAATT
Found at i:2053343 original size:37 final size:37
Alignment explanation
Indices: 2053267--2053343 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
2053257 TTTTTATATT
*
2053267 TTTAATTTTGTAAAAATATATATATAAATATTATGAA
1 TTTAATTTTGTAAAAATATATATATAAATATTATCAA
* *
2053304 TTTAATTTTTTAAAGAA-A-ATATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AATATATATATAAATATTAT-CAA
2053341 TTT
1 TTT
2053344 GTAATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 14 0.40
37 19 0.54
38 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAAATATATATATAAATATTATCAA
Found at i:2053351 original size:17 final size:17
Alignment explanation
Indices: 2053329--2053374 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
2053319 AAAATATATA
2053329 AATATTTTACAATTTGT
1 AATATTTTACAATTTGT
2053346 AATATTTTACAATTTGT
1 AATATTTTACAATTTGT
*
2053363 AATATTATACAA
1 AATATTTTACAA
2053375 ATATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (17 bp):
AATATTTTACAATTTGT
Found at i:2055084 original size:42 final size:42
Alignment explanation
Indices: 2055038--2055125 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
2055028 AATCACATAA
*
2055038 TTAAATAAGCATAATATTATTATCCATAATCGTCTCTTTAAT
1 TTAAATAAGCATAATATTATTATCCATAATCATCTCTTTAAT
*
2055080 TTAAATAAGCATAATATTATTATCCATACTCATCTCTTTAAT
1 TTAAATAAGCATAATATTATTATCCATAATCATCTCTTTAAT
2055122 TTAA
1 TTAA
2055126 TAAAACGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.43
Consensus pattern (42 bp):
TTAAATAAGCATAATATTATTATCCATAATCATCTCTTTAAT
Found at i:2056172 original size:29 final size:29
Alignment explanation
Indices: 2056041--2056160 Score: 195
Period size: 29 Copynumber: 4.1 Consensus size: 29
2056031 ACCCGACCTA
* *
2056041 GGTGTTATTTTTGTAAATATTTTTAAAAG
1 GGTGATATTTTAGTAAATATTTTTAAAAG
*
2056070 GGTGCTATTTTAGTAAATATTTTTAAAAG
1 GGTGATATTTTAGTAAATATTTTTAAAAG
* *
2056099 GGTGATATTTTCGTAAATATTTTAAAAAG
1 GGTGATATTTTAGTAAATATTTTTAAAAG
2056128 GGTGATATTTTAGTAAATATTTTTAAAAG
1 GGTGATATTTTAGTAAATATTTTTAAAAG
2056157 GGTG
1 GGTG
2056161 TTAGTTTTGT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 84 1.00
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (29 bp):
GGTGATATTTTAGTAAATATTTTTAAAAG
Found at i:2057271 original size:25 final size:25
Alignment explanation
Indices: 2057223--2057272 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2057213 AGGGTAACTC
* *
2057223 TTTTATGGGATTTACTGCAGTATGA
1 TTTTATGAGATTTACTGCACTATGA
* *
2057248 TTTTATGAGATTTATTGGACTATGA
1 TTTTATGAGATTTACTGCACTATGA
2057273 CTTGTTTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATGA
Found at i:2063461 original size:29 final size:29
Alignment explanation
Indices: 2063416--2063536 Score: 170
Period size: 29 Copynumber: 4.2 Consensus size: 29
2063406 GACCCGACCC
* *
2063416 GGGTTCTATTTTCGTAAATATTTTTAGAA
1 GGGTGCTATTTTCGTAAATATTTTTAAAA
*
2063445 GGGTGCTATTTTTGTAAATATTTTTAAAA
1 GGGTGCTATTTTCGTAAATATTTTTAAAA
* *
2063474 GGGTGCTACTTTCGTAAATATTTTGAAAA
1 GGGTGCTATTTTCGTAAATATTTTTAAAA
* * *
2063503 TGGTGCAATTTTAGTAAATATTTTTAAAA
1 GGGTGCTATTTTCGTAAATATTTTTAAAA
2063532 GGGTG
1 GGGTG
2063537 TTAGTTTTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.44
Consensus pattern (29 bp):
GGGTGCTATTTTCGTAAATATTTTTAAAA
Found at i:2066109 original size:15 final size:15
Alignment explanation
Indices: 2066073--2066112 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
2066063 ATTAAAATCT
2066073 TATATATATTAAATA
1 TATATATATTAAATA
* * *
2066088 TACATATATTAACTC
1 TATATATATTAAATA
2066103 TATATATATT
1 TATATATATT
2066113 TTAGTAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATATATTAAATA
Found at i:2066365 original size:18 final size:18
Alignment explanation
Indices: 2066342--2066406 Score: 121
Period size: 18 Copynumber: 3.6 Consensus size: 18
2066332 TTTATATCTA
*
2066342 GAATAGACACAAGTCTTG
1 GAATAGTCACAAGTCTTG
2066360 GAATAGTCACAAGTCTTG
1 GAATAGTCACAAGTCTTG
2066378 GAATAGTCACAAGTCTTG
1 GAATAGTCACAAGTCTTG
2066396 GAATAGTCACA
1 GAATAGTCACA
2066407 CTTGTATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (18 bp):
GAATAGTCACAAGTCTTG
Found at i:2067287 original size:36 final size:36
Alignment explanation
Indices: 2067229--2067414 Score: 121
Period size: 36 Copynumber: 5.2 Consensus size: 36
2067219 TTCATCTCGT
*
2067229 TTGAGATAGATTTTCTTGAAATAAA-TTTGATCTCAC
1 TTGAGATAGATTTTCTTAAAATAAATTTTG-TCTCAC
* *
2067265 TTGAGATTG-TTTTCTTAAAAATAAATTTTGTCTCGC
1 TTGAGATAGATTTTCTT-AAAATAAATTTTGTCTCAC
* * ** *
2067301 TTGAGACA-ATTTCTCTTTAAGCAAATTTTGTCTCCC
1 TTGAGATAGATTT-TCTTAAAATAAATTTTGTCTCAC
* * * * *
2067337 TTGAGACA-TTTTCTCTTGAAACAAATTTTGTCTCCC
1 TTGAGATAGATTT-TCTTAAAATAAATTTTGTCTCAC
* * * * * *
2067373 TTGAGACA-ATTTGCCTTGAAACAAATTTCGTCTCGC
1 TTGAGATAGATTT-TCTTAAAATAAATTTTGTCTCAC
2067409 TTGAGA
1 TTGAGA
2067415 CAGTTTCTCT
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
35 7 0.05
36 114 0.88
37 8 0.06
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (36 bp):
TTGAGATAGATTTTCTTAAAATAAATTTTGTCTCAC
Found at i:2067347 original size:19 final size:19
Alignment explanation
Indices: 2067325--2067385 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
2067315 CTTTAAGCAA
2067325 ATTTTGTCTCCCTTGAGAC
1 ATTTTGTCTCCCTTGAGAC
*
2067344 A-TTT-TCT--CTTGAAAC
1 ATTTTGTCTCCCTTGAGAC
2067359 AAATTTTGTCTCCCTTGAGAC
1 --ATTTTGTCTCCCTTGAGAC
*
2067380 AATTTG
1 ATTTTG
2067386 CCTTGAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
15 7 0.21
17 4 0.12
18 6 0.18
19 9 0.27
21 7 0.21
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (19 bp):
ATTTTGTCTCCCTTGAGAC
Found at i:2067431 original size:36 final size:36
Alignment explanation
Indices: 2067287--2067424 Score: 197
Period size: 36 Copynumber: 3.8 Consensus size: 36
2067277 TCTTAAAAAT
* * *
2067287 AAATTTTGTCTCGCTTGAGACAATTTCTCTTTAAGC
1 AAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAAC
*
2067323 AAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAAC
2067359 AAATTTTGTCTCCCTTGAGACAATTTGC-CTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAATTT-CTCTTGAAAC
* * *
2067395 AAATTTCGTCTCGCTTGAGACAGTTTCTCT
1 AAATTTTGTCTCCCTTGAGACAATTTCTCT
2067425 GTAAACATAA
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
35 1 0.01
36 90 0.98
37 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAAC
Found at i:2067431 original size:72 final size:72
Alignment explanation
Indices: 2067229--2067424 Score: 211
Period size: 72 Copynumber: 2.7 Consensus size: 72
2067219 TTCATCTCGT
* * * ** * *
2067229 TTGAGATAGATTT-TCTTGAAATAAATTT-GATCTCACTTGAGATTGTTT-TCTTAAAAATAAAT
1 TTGAGACA-ATTTCTCTTGAAACAAATTTCG-TCTCCCTTGAGACAGTTTCTCTT-GAAACAAAT
*
2067291 TTTGTCTCGC
63 TTTGTCTCCC
* * * *
2067301 TTGAGACAATTTCTCTTTAAGCAAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAACAAATTTT
1 TTGAGACAATTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTT
2067366 GTCTCCC
66 GTCTCCC
*
2067373 TTGAGACAATTTGC-CTTGAAACAAATTTCGTCTCGCTTGAGACAGTTTCTCT
1 TTGAGACAATTT-CTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCT
2067425 GTAAACATAA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
71 4 0.04
72 94 0.90
73 6 0.06
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (72 bp):
TTGAGACAATTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTT
GTCTCCC
Found at i:2067874 original size:68 final size:67
Alignment explanation
Indices: 2067683--2067876 Score: 200
Period size: 68 Copynumber: 2.9 Consensus size: 67
2067673 ATTGATCTCA
* * * *
2067683 CTTGAAATTGTTT-TC-CC-AAACAAAATTTCGTCTCGCTTGGGACATTTTCTCTCGAAACATAA
1 CTTGAGATTGTTTCTCTCCAAAACTAAA-TTCGTCTCGCTTGAGACATTTTCTCTTGAAACATAA
2067745 ACC
65 ACC
* * * * *
2067748 TTTGAGATTGTTTTTCTCCAAAACTAAATTTCGTATCACTTGAGACATTTTCTTTTGAAACATAA
1 CTTGAGATTGTTTCTCTCCAAAACTAAA-TTCGTCTCGCTTGAGACATTTTCTCTTGAAACATAA
*
2067813 GCC
65 ACC
* *
2067816 CTTGAGATTGTTTCTCT-CAAAACATAAA-TCGTCTCGCTCGAGACAGTTATTCCCTTGAAAC
1 CTTGAGATTGTTTCTCTCCAAAAC-TAAATTCGTCTCGCTTGAGACA-TT-TTCTCTTGAAAC
2067877 GCAAAATTTG
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
65 11 0.10
66 16 0.15
67 10 0.09
68 70 0.65
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (67 bp):
CTTGAGATTGTTTCTCTCCAAAACTAAATTCGTCTCGCTTGAGACATTTTCTCTTGAAACATAAA
CC
Found at i:2068566 original size:139 final size:138
Alignment explanation
Indices: 2068100--2068571 Score: 520
Period size: 139 Copynumber: 3.4 Consensus size: 138
2068090 GAGCTATGTC
* * *
2068100 ATCCTCGGATAATCATACTTCCTCATCACGTAGGAACTGCGTTGTCTCCAAATTATCCCTAAAGA
1 ATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACTGCGTTGTCTCCAAATTATCCCTAAAGA
* * * * * * * ** *
2068165 TGACTAGACATCCTCATCATGTAGGAACAATGTCATCCACCGACCAGATTTTTTCAACACGTAGG
66 CGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACCAGATATTCTCAATGC-TTGG
2068230 AGCAACGTT
130 AGCAACGTT
* * * * *
2068239 TTCCTCATACAATC-GACTTTCTCATCACGTAGGAA-TCGTGTTGTCTTCAAATTAT-CCTAAAG
1 ATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACT-GCGTTGTCTCCAAATTATCCCTAAAG
* * *
2068301 ACGGCTAGACGTCCTCATCACATAGGAACAATGTCGTCCACTGACCAGATCTTCTCAATGCTTAG
65 ACGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACCAGATATTCTCAATGCTT-G
* *
2068366 GAGCAACATC
129 GAGCAACGTT
* * * ** * * *
2068376 ATCCTCAAATAACCAGACTTCCTCATTGCATAGGAATTGCATTG-CTTCCAAATTATCCCTAAAG
1 ATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACTGCGTTGTC-TCCAAATTATCCCTAAAG
* * * *
2068440 ACGGCTAAACGTCCTCATCACGTAGGAATAATGTCGTCTACCGACCAGATATCCTCAATGCATTG
65 ACGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACCAGATATTCTCAATGC-TTG
2068505 GAGCAACGTT
129 GAGCAACGTT
* * * *
2068515 ATCCTCAGACAATCAGACTTCCTCGTCACGTAGGAACAGTGTTGTCACCAAATTATC
1 ATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACTGCGTTGTCTCCAAATTATC
2068572 TCCAGATTGA
Statistics
Matches: 271, Mismatches: 54, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
136 1 0.00
137 78 0.29
138 65 0.24
139 124 0.46
140 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (138 bp):
ATCCTCAGACAATCAGACTTCCTCATCACGTAGGAACTGCGTTGTCTCCAAATTATCCCTAAAGA
CGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACCAGATATTCTCAATGCTTGGA
GCAACGTT
Found at i:2069732 original size:29 final size:29
Alignment explanation
Indices: 2069700--2069755 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
2069690 TTATTTCAAG
*
2069700 TTAACAACTATCTTTTATTTTATTGCATA
1 TTAACAACTAACTTTTATTTTATTGCATA
*
2069729 TTAACCACTAACTTTTATTTTATTGCA
1 TTAACAACTAACTTTTATTTTATTGCA
2069756 CTCTAACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.50
Consensus pattern (29 bp):
TTAACAACTAACTTTTATTTTATTGCATA
Found at i:2070037 original size:16 final size:16
Alignment explanation
Indices: 2069979--2070056 Score: 61
Period size: 16 Copynumber: 5.0 Consensus size: 16
2069969 CTGATAACCA
*
2069979 CTAACCGCTAACTTTT
1 CTAACCGCTAACCTTT
* * **
2069995 CTAAACGTTAATTTTT
1 CTAACCGCTAACCTTT
**
2070011 CTAACAACTAACCTTT
1 CTAACCGCTAACCTTT
*
2070027 CTAACCGCTAA--TTA
1 CTAACCGCTAACCTTT
*
2070041 CTAACTGCTAACCTTT
1 CTAACCGCTAACCTTT
2070057 TATTTATTTA
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
14 12 0.26
16 34 0.74
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (16 bp):
CTAACCGCTAACCTTT
Found at i:2070217 original size:16 final size:16
Alignment explanation
Indices: 2070192--2070227 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2070182 ATTTATGTTA
*
2070192 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
*
2070208 TTTAAATTTATGCATT
1 TTTAAATTTATGCACT
2070224 TTTA
1 TTTA
2070228 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:2076492 original size:3 final size:3
Alignment explanation
Indices: 2076484--2076523 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
2076474 TTTTCAGAAC
* * *
2076484 TAT TAT TAT TAT TAT TAT TAT TAC CAT TAT TAA TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2076524 TGAGGACTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2081598 original size:14 final size:14
Alignment explanation
Indices: 2081579--2081626 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
2081569 CGTTCGGTAA
2081579 TATGTTCATTCATT
1 TATGTTCATTCATT
** *
2081593 TATGTTTGTTCGTT
1 TATGTTCATTCATT
*
2081607 TATGTGCATTCATT
1 TATGTTCATTCATT
2081621 TATGTT
1 TATGTT
2081627 TAGCCCAATC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.58
Consensus pattern (14 bp):
TATGTTCATTCATT
Found at i:2081827 original size:13 final size:13
Alignment explanation
Indices: 2081809--2081834 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2081799 TTATGATCGT
2081809 TTACGTTCGTTTA
1 TTACGTTCGTTTA
2081822 TTACGTTCGTTTA
1 TTACGTTCGTTTA
2081835 CGTTCATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
TTACGTTCGTTTA
Found at i:2081832 original size:23 final size:23
Alignment explanation
Indices: 2081805--2081857 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2081795 TCATTTATGA
*
2081805 TCGTTTACGTTCGTTTATTACGT
1 TCGTTTACGTTCATTTATTACGT
**
2081828 TCGTTTACGTTCATTTATTGTGT
1 TCGTTTACGTTCATTTATTACGT
2081851 TCGTTTA
1 TCGTTTA
2081858 TCATTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.13, C:0.15, G:0.17, T:0.55
Consensus pattern (23 bp):
TCGTTTACGTTCATTTATTACGT
Found at i:2087467 original size:289 final size:289
Alignment explanation
Indices: 2086948--2087512 Score: 1094
Period size: 289 Copynumber: 2.0 Consensus size: 289
2086938 GATATGTTCA
*
2086948 CCAAGCCAGTTACGACAGACAAGTTCATGCTTTGCTTGGACTTGTTGAATGTTTCGAGTTATTAA
1 CCAAGCCAGTTACGACAGACAAGTTCATGCTTTGCTTGAACTTGTTGAATGTTTCGAGTTATTAA
*
2087013 AGAAGTAAGGTAACCCAACCCACATTGAATGTTTCCTAAGGGGCAGGATATTCGCCAAGGTGGAG
66 AGAAGTAAGGTAACCCAACCCACATTGAATGTTTCCTAAGGGGCAGGATATTCACCAAGGTGGAG
2087078 ATTTGTTAGGTATGACTCATAAATATACTGAGAAAGTCTCGTAGTGGGGGTTACGATTATGTGGG
131 ATTTGTTAGGTATGACTCATAAATATACTGAGAAAGTCTCGTAGTGGGGGTTACGATTATGTGGG
2087143 TTGGGGTGCGGGGACTAAGGAACCGCGGTATGGTATAAGGTTATTTTTATAAATATGTATCAGGG
196 TTGGGGTGCGGGGACTAAGGAACCGCGGTATGGTATAAGGTTATTTTTATAAATATGTATCAGGG
2087208 TTTATTTATTATAAAATAAATAAGGTAAC
261 TTTATTTATTATAAAATAAATAAGGTAAC
* *
2087237 CCAAGCCAGTTACGATAGACAAGTTCATGCTTTGCTTGAACTTGTTGAATGTTTCGAGTTGTTAA
1 CCAAGCCAGTTACGACAGACAAGTTCATGCTTTGCTTGAACTTGTTGAATGTTTCGAGTTATTAA
2087302 AGAAGTAAGGTAACCCAACCCACATTGAATGTTTCCTAAGGGGCAGGATATTCACCAAGGTGGAG
66 AGAAGTAAGGTAACCCAACCCACATTGAATGTTTCCTAAGGGGCAGGATATTCACCAAGGTGGAG
2087367 ATTTGTTAGGTATGACTCATAAATATACTGAGAAAGTCTCGTAGTGGGGGTTACGATTATGTGGG
131 ATTTGTTAGGTATGACTCATAAATATACTGAGAAAGTCTCGTAGTGGGGGTTACGATTATGTGGG
2087432 TTGGGGTGCGGGGACTAAGGAACCGCGGTATGGTATAAGGTTATTTTTATAAATATGTATCAGGG
196 TTGGGGTGCGGGGACTAAGGAACCGCGGTATGGTATAAGGTTATTTTTATAAATATGTATCAGGG
2087497 TTTATTTATTATAAAA
261 TTTATTTATTATAAAA
2087513 GGAGATGTAA
Statistics
Matches: 272, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
289 272 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (289 bp):
CCAAGCCAGTTACGACAGACAAGTTCATGCTTTGCTTGAACTTGTTGAATGTTTCGAGTTATTAA
AGAAGTAAGGTAACCCAACCCACATTGAATGTTTCCTAAGGGGCAGGATATTCACCAAGGTGGAG
ATTTGTTAGGTATGACTCATAAATATACTGAGAAAGTCTCGTAGTGGGGGTTACGATTATGTGGG
TTGGGGTGCGGGGACTAAGGAACCGCGGTATGGTATAAGGTTATTTTTATAAATATGTATCAGGG
TTTATTTATTATAAAATAAATAAGGTAAC
Found at i:2089879 original size:2 final size:2
Alignment explanation
Indices: 2089874--2089912 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2089864 TTTTAATTTA
2089874 AT AT AT AT AT AT AT AT AT AT AT A- 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
2089913 GGGATAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2090602 original size:12 final size:12
Alignment explanation
Indices: 2090585--2090611 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2090575 TTAATTGCGA
2090585 AAATTGAAATTT
1 AAATTGAAATTT
2090597 AAATTGAAATTT
1 AAATTGAAATTT
2090609 AAA
1 AAA
2090612 AATTTTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:2091824 original size:15 final size:15
Alignment explanation
Indices: 2091806--2091834 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2091796 GACCACTACA
2091806 TCCCGAAGGACTATG
1 TCCCGAAGGACTATG
2091821 TCCCGAAGGACTAT
1 TCCCGAAGGACTAT
2091835 TATACCCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (15 bp):
TCCCGAAGGACTATG
Found at i:2091965 original size:29 final size:29
Alignment explanation
Indices: 2091918--2092027 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
2091908 TTTTATATGT
*
2091918 TCATGTA-CTCATGTAATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
2091946 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
2091975 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
2092004 TCATGTTGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
2092028 ATATCACGTA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
28 7 0.09
29 64 0.84
30 5 0.07
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.46
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:2094198 original size:3 final size:3
Alignment explanation
Indices: 2094192--2094217 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2094182 AGTAAAAACA
2094192 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2094218 CATAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2094857 original size:121 final size:121
Alignment explanation
Indices: 2094543--2095254 Score: 996
Period size: 121 Copynumber: 5.8 Consensus size: 121
2094533 AAAATCTTAA
* *
2094543 GCACGGTATCCTTCTTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* * * * * *
2094608 AATTGAATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGATG-AATGCTGCTTGTGG
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCC-A---AGGGTTGCATTGCTGCTTGTGG
*
2094667 GCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
*
2094732 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTACTTGTGG
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGG
* ** *
2094788 GCACGATATCCTTCGTCGTGAAGTTGAAATCATTAATGGCTCATTCGTTGCAAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* * * * * *
2094853 AATTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTAGAGATGGA-TGCTTCTTGTGG
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCC-A---AGGGTTGCATTGCTGCTTGTGG
*
2094912 GCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* * *
2094977 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTACATTGCTTCTTGTAG
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGG
* *
2095033 GCACGATATCCTTCGTCGTGAAGCTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* * *
2095098 AATTGGATATCCTTTGTCGTGAAGTTGAAATCCAAGGGTTGTATTACTGCTTGTGG
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGG
* ** ** * *
2095154 GCACGATATCCTTCTTCGTGAAGTTGAAATTATGGATAACTCCTTCGTTGTGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* *
2095219 AATTGGATATCATTCGTCATGAAGTTGAAATCCAAG
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAG
2095255 TATTGTTTCA
Statistics
Matches: 530, Mismatches: 52, Indels: 15
0.89 0.09 0.03
Matches are distributed among these distances:
120 10 0.02
121 317 0.60
122 1 0.00
123 2 0.00
124 194 0.37
125 6 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (121 bp):
GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGG
Found at i:2094979 original size:245 final size:245
Alignment explanation
Indices: 2094543--2095254 Score: 1099
Period size: 245 Copynumber: 2.9 Consensus size: 245
2094533 AAAATCTTAA
* *
2094543 GCACGGTATCCTTCTTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* *
2094608 AATTGAATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGGGCACGA
66 AATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGGGCACGA
2094673 TATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGG
131 TATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGG
* *
2094738 ATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTACTTGTGG
196 ATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTACATTGCTACTTGTAG
* ** *
2094788 GCACGATATCCTTCGTCGTGAAGTTGAAATCATTAATGGCTCATTCGTTGCAAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* * *
2094853 AATTGGATATCCTTCGTTGTGAAGTTAAAATCCAATCTAGAGATGGATGCTTCTTGTGGGCACGA
66 AATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGGGCACGA
2094918 TATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGG
131 TATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGG
*
2094983 ATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTACATTGCTTCTTGTAG
196 ATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTACATTGCTACTTGTAG
* *
2095033 GCACGATATCCTTCGTCGTGAAGCTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* * * * * *
2095098 AATTGGATATCCTTTGTCGTGAAGTTGAAATCC-A---AGGGTTGTATTACTGCTTGTGGGCACG
66 AATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATG-AATGCTGCTTGTGGGCACG
* * ** ** * *
2095159 ATATCCTTCTTCGTGAAGTTGAAATTATGGATAACTCCTTCGTTGTGAAGTTGAGCTTTGAATTG
130 ATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTG
* *
2095224 GATATCATTCGTCATGAAGTTGAAATCCAAG
195 GATATCCTTCGTCGTGAAGTTGAAATCCAAG
2095255 TATTGTTTCA
Statistics
Matches: 427, Mismatches: 39, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
241 5 0.01
242 101 0.24
244 1 0.00
245 320 0.75
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (245 bp):
GCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
AATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGGGCACGA
TATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGG
ATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTACATTGCTACTTGTAG
Found at i:2095224 original size:366 final size:367
Alignment explanation
Indices: 2094543--2095253 Score: 1095
Period size: 366 Copynumber: 1.9 Consensus size: 367
2094533 AAAATCTTAA
* * *
2094543 GCACGGTATCCTTCTTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* *
2094608 AATTGAATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGGGCACGA
66 AATTGAATATCATTCGTCGTGAAGTTGAAATCCAA--TAGAGATGAATGCTGCTTGTAGGCACGA
*
2094673 TATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGG
129 TATCCTTCGTCGTGAAGCTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGG
*
2094738 ATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTACTTGTGGGCACGATATCCTTCG
194 ATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTACTACTTGTGGGCACGATATCCTTCG
* ** *
2094803 TCGTGAAGTTGAAATCATTAATGGCTCATTCGTTGCAAAGTTGAGCTTTGAATTGGATATCCTTC
259 TCGTGAAGTTGAAATCATGAATAACTCATTCGTTGCAAAGTTGAGCTTTGAATTGGATATCATTC
**
2094868 GTTGTGAAGTTAAAATCCAATCTAGAGATGGATGCTTCTTGTGG
324 GTCATGAAGTTAAAATCCAATCTAGAGATGGATGCTTCTTGTGG
2094912 GCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
1 GCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
* * * * *
2094977 AATTGGATATCCTTCGTCGTGAAGTTGAAATCC-A-AG-GGTTACATTGCTTCTTGTAGGCACGA
66 AATTGAATATCATTCGTCGTGAAGTTGAAATCCAATAGAGATGA-A-TGCTGCTTGTAGGCACGA
* *
2095039 TATCCTTCGTCGTGAAGCTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATTGG
129 TATCCTTCGTCGTGAAGCTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGG
* * * *
2095104 ATATCCTTTGTCGTGAAGTTGAAATCCAAGGGTTGTATTACTGCTTGTGGGCACGATATCCTTCT
194 ATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTACTACTTGTGGGCACGATATCCTTCG
* * * **
2095169 TCGTGAAGTTGAAATTATGGATAACTCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCATTC
259 TCGTGAAGTTGAAATCATGAATAACTCATTCGTTGCAAAGTTGAGCTTTGAATTGGATATCATTC
*
2095234 GTCATGAAGTTGAAATCCAA
324 GTCATGAAGTTAAAATCCAA
2095254 GTATTGTTTC
Statistics
Matches: 310, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
364 3 0.01
365 3 0.01
366 211 0.68
368 1 0.00
369 92 0.30
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (367 bp):
GCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTG
AATTGAATATCATTCGTCGTGAAGTTGAAATCCAATAGAGATGAATGCTGCTTGTAGGCACGATA
TCCTTCGTCGTGAAGCTAAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCTTTGAATTGGAT
ATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTACTACTTGTGGGCACGATATCCTTCGTC
GTGAAGTTGAAATCATGAATAACTCATTCGTTGCAAAGTTGAGCTTTGAATTGGATATCATTCGT
CATGAAGTTAAAATCCAATCTAGAGATGGATGCTTCTTGTGG
Found at i:2095287 original size:60 final size:64
Alignment explanation
Indices: 2095213--2095374 Score: 233
Period size: 65 Copynumber: 2.6 Consensus size: 64
2095203 GTGAAGTTGA
* * * *
2095213 GCTTTGAATTGGATATCATTCGTCATGAAGTTGAAATCCAAG-T-A-T-TGTTTCACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTTGAGTAAGTTTCACCAAATTG
*
2095273 GCTTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATCCAAGTTTGAGTAAGTTTCACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAAG-TTGAGTAAGTTTCACCAAATTG
*
2095338 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAAT
1 GCTTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAAT
2095375 TGACTCTGAA
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
60 38 0.42
62 1 0.01
63 1 0.01
64 1 0.01
65 49 0.54
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (64 bp):
GCTTTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTTGAGTAAGTTTCACCAAATTG
Found at i:2095423 original size:64 final size:64
Alignment explanation
Indices: 2095350--2095600 Score: 403
Period size: 64 Copynumber: 3.9 Consensus size: 64
2095340 TTTGAGTTGG
* *
2095350 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTGGAAAGTTGTTTGTTGAGTCTA
1 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCA
* * * * *
2095414 ATATCCTTCGCTGGGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTATTGAGTCCA
1 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCA
*
2095478 ATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCA
1 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCA
* * *
2095542 ATATCTTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAATGTTATTTGTTGA
1 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGA
2095601 CAGATAGCTT
Statistics
Matches: 171, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 171 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (64 bp):
ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCA
Found at i:2096270 original size:33 final size:31
Alignment explanation
Indices: 2096192--2096268 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 31
2096182 ACTGAATTCC
*
2096192 CAAAGATGCCCCAATATTCGATGTTGAATAT
1 CAAAGATGCCCCAACATTCGATGTTGAATAT
* * *
2096223 CAAAAAAATGCCCCAACATTTGATGTTGAATCTT
1 C--AAAGATGCCCCAACATTCGATGTTGAAT-AT
2096257 CAAAGATGCCCC
1 CAAAGATGCCCC
2096269 CATTGTCCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 1 0.03
32 10 0.26
33 25 0.66
34 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (31 bp):
CAAAGATGCCCCAACATTCGATGTTGAATAT
Found at i:2097361 original size:16 final size:16
Alignment explanation
Indices: 2097340--2097395 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
2097330 TGTTTTTGTT
2097340 TCTTTTTTTTATTTTC
1 TCTTTTTTTTATTTTC
2097356 TCTTTTTTTCCT-TTTTC
1 TCTTTTTTT--TATTTTC
2097373 -CTTTTTTATTCA-TTTC
1 TCTTTTTT-TT-ATTTTC
2097389 TCTTTTT
1 TCTTTTT
2097396 GTTCTGATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
15 1 0.03
16 20 0.59
17 12 0.35
18 1 0.03
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTTTTTTTATTTTC
Found at i:2097364 original size:17 final size:17
Alignment explanation
Indices: 2097342--2097395 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
2097332 TTTTTGTTTC
2097342 TTTTTTTTATTTTCTCT
1 TTTTTTTTATTTTCTCT
*
2097359 TTTTTTCCT-TTTTC-CT
1 TTTTTT-TTATTTTCTCT
*
2097375 TTTTTATTCA-TTTCTCT
1 TTTTT-TTTATTTTCTCT
2097392 TTTT
1 TTTT
2097396 GTTCTGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 11 0.37
17 18 0.60
18 1 0.03
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTTTATTTTCTCT
Found at i:2100139 original size:16 final size:17
Alignment explanation
Indices: 2100118--2100155 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
2100108 CTGTCTTTTT
2100118 AAAAACAATTTTAAGA-
1 AAAAACAATTTTAAGAC
*
2100134 AAAAACATTTTTAAGAC
1 AAAAACAATTTTAAGAC
2100151 AAAAA
1 AAAAA
2100156 ACTGGTATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAAACAATTTTAAGAC
Found at i:2100400 original size:30 final size:29
Alignment explanation
Indices: 2100366--2100431 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
2100356 TGAAAACATT
* *
2100366 AACTTAAAGGATTAAAATAACAAAAATAGA
1 AACTTAAAGGACTAAAATAA-AAAAACAGA
* *
2100396 AACTTAAATGACTAAAATAAAATAACAGA
1 AACTTAAAGGACTAAAATAAAAAAACAGA
2100425 AACTTAA
1 AACTTAA
2100432 GTATCAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.62, C:0.09, G:0.08, T:0.21
Consensus pattern (29 bp):
AACTTAAAGGACTAAAATAAAAAAACAGA
Found at i:2100869 original size:22 final size:22
Alignment explanation
Indices: 2100844--2100895 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
2100834 GTCATTGTAG
2100844 GCCACTACCGTCACGCCACCGC
1 GCCACTACCGTCACGCCACCGC
2100866 GCCACTACCGTCACGCCACCGC
1 GCCACTACCGTCACGCCACCGC
2100888 GCCACTAC
1 GCCACTAC
2100896 TTCCGCCAGT
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:0.19, C:0.54, G:0.17, T:0.10
Consensus pattern (22 bp):
GCCACTACCGTCACGCCACCGC
Found at i:2101231 original size:3 final size:3
Alignment explanation
Indices: 2101223--2101271 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
2101213 GAAAAGAAGG
2101223 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2101271 A
1 A
2101272 TGCTACTGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2101710 original size:3 final size:3
Alignment explanation
Indices: 2101704--2101737 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
2101694 AGTAAAAATA
2101704 AAT AAT AAT AAT AAAT AAT AAAT AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AA
2101738 CATAATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2101711 original size:17 final size:16
Alignment explanation
Indices: 2101691--2101744 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
2101681 AACACTTATT
2101691 ATAAGTAAAAATAAATA
1 ATAA-TAAAAATAAATA
2101708 ATAATAATAAAT-AATAA
1 ATAATAA-AAATAAAT-A
*
2101725 ATAATAATAATAACATA
1 ATAATAAAAATAA-ATA
2101742 ATA
1 ATA
2101745 TATTTAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 9 0.28
17 21 0.66
18 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
ATAATAAAAATAAATA
Found at i:2101713 original size:10 final size:10
Alignment explanation
Indices: 2101700--2101734 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
2101690 TATAAGTAAA
2101700 AATAAATAAT
1 AATAAATAAT
2101710 AAT-AATAAAT
1 AATAAAT-AAT
2101720 AATAAATAAT
1 AATAAATAAT
2101730 AATAA
1 AATAA
2101735 TAACATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.13
10 17 0.74
11 3 0.13
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:2101718 original size:13 final size:13
Alignment explanation
Indices: 2101700--2101737 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
2101690 TATAAGTAAA
2101700 AATAAATAATAAT
1 AATAAATAATAAT
2101713 AATAAATAATAAAT
1 AATAAATAAT-AAT
2101727 AAT-AATAATAA
1 AATAAATAATAA
2101738 CATAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 16 0.67
14 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:2101723 original size:20 final size:20
Alignment explanation
Indices: 2101691--2101744 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
2101681 AACACTTATT
2101691 ATAAGTAAA-AATAAATAATA
1 ATAA-TAAATAATAAATAATA
2101711 ATAATAAATAATAAATAATA
1 ATAATAAATAATAAATAATA
2101731 ATAATAACATAATA
1 ATAATAA-ATAATA
2101745 TATTTAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.12
20 22 0.69
21 6 0.19
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
ATAATAAATAATAAATAATA
Found at i:2102559 original size:2 final size:2
Alignment explanation
Indices: 2102547--2102576 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2102537 GCTTAAGGTC
2102547 TA TA T- 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 TA T
2102577 GCTTTCCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2104033 original size:18 final size:20
Alignment explanation
Indices: 2103992--2104033 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
2103982 AAATTTTAAA
*
2103992 TTTTTATATAATTTAGTTAT
1 TTTTTATATAATTTAGTTAC
*
2104012 TTTTTAT-TAA-TTATTTAC
1 TTTTTATATAATTTAGTTAC
2104030 TTTT
1 TTTT
2104034 ACCTTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 3 0.15
20 7 0.35
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTATATAATTTAGTTAC
Found at i:2104669 original size:13 final size:13
Alignment explanation
Indices: 2104653--2104677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2104643 TCCCAAAACC
2104653 CTTCACTTGAAAT
1 CTTCACTTGAAAT
2104666 CTTCACTTGAAA
1 CTTCACTTGAAA
2104678 ACAAACTCTT
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:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (13 bp):
CTTCACTTGAAAT
Found at i:2105203 original size:14 final size:14
Alignment explanation
Indices: 2105186--2105241 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
2105176 TTAATGTTAT
2105186 TTATATAATAATTA
1 TTATATAATAATTA
*
2105200 TTATATTATAATTA
1 TTATATAATAATTA
2105214 -TA-ATAATAATTA
1 TTATATAATAATTA
*
2105226 TTAAAT-ATATATTA
1 TTATATAATA-ATTA
2105240 TT
1 TT
2105242 TAATATTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 9 0.24
13 7 0.19
14 21 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATATAATAATTA
Found at i:2105239 original size:26 final size:25
Alignment explanation
Indices: 2105186--2105246 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
2105176 TTAATGTTAT
*
2105186 TTATATAATAATTATTATATTATAA
1 TTATATAATAATTATTAAATTATAA
2105211 TTATAATAATAATTATTAAA-TATATA
1 TTAT-ATAATAATTATTAAATTATA-A
*
2105237 TTATTTAATA
1 TTATATAATA
2105247 TTACAAAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTATATAATAATTATTAAATTATAA
Found at i:2105709 original size:18 final size:19
Alignment explanation
Indices: 2105668--2105703 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2105658 GGAGAGACAG
2105668 AAACAGAGCAAAAACAACA
1 AAACAGAGCAAAAACAACA
*
2105687 AAACAGAG-AACAACAAC
1 AAACAGAGCAAAAACAAC
2105704 CCAACAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.22, G:0.11, T:0.00
Consensus pattern (19 bp):
AAACAGAGCAAAAACAACA
Done.