Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_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: 3931635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 20
Found at i:3136609 original size:12 final size:12
Alignment explanation
Indices: 3136589--3136618 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3136579 TGAAGGCATC
*
3136589 GACAGCCGGCTA
1 GACAACCGGCTA
3136601 GACAACCGGCTA
1 GACAACCGGCTA
3136613 GACAAC
1 GACAAC
3136619 ACCTGTGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.33, G:0.27, T:0.07
Consensus pattern (12 bp):
GACAACCGGCTA
Found at i:3138595 original size:11 final size:11
Alignment explanation
Indices: 3138579--3138628 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
3138569 GAAATGGTGA
*
3138579 AATAAATACAT
1 AATAAATAAAT
3138590 AATAAATAAAT
1 AATAAATAAAT
3138601 AA-AAATAATAT
1 AATAAATAA-AT
3138612 AA-ACAATATAAT
1 AATA-AATA-AAT
3138624 AATAA
1 AATAA
3138629 TAATAATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 6 0.18
11 17 0.50
12 9 0.26
13 2 0.06
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:3138678 original size:11 final size:11
Alignment explanation
Indices: 3138664--3138700 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
3138654 TGTTTTTTTT
3138664 AAATGTTTTCA
1 AAATGTTTTCA
3138675 AAATGTTTTCAA
1 AAATGTTTTC-A
*
3138687 AAATATTTTCA
1 AAATGTTTTCA
3138698 AAA
1 AAA
3138701 CCATTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:3138689 original size:12 final size:12
Alignment explanation
Indices: 3138664--3138700 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
3138654 TGTTTTTTTT
3138664 AAATGTTTTC-A
1 AAATGTTTTCAA
3138675 AAATGTTTTCAA
1 AAATGTTTTCAA
*
3138687 AAATATTTTCAA
1 AAATGTTTTCAA
3138699 AA
1 AA
3138701 CCATTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (12 bp):
AAATGTTTTCAA
Found at i:3138766 original size:30 final size:31
Alignment explanation
Indices: 3138710--3138777 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 31
3138700 ACCATTATAT
* *
3138710 TATATATGTTTTCAAAACTATTTTTTAAAAAC
1 TATATACGTCTTCAAAACTA-TTTTTAAAAAC
3138742 TATATACGTCTTCAAAACTA-TTTTAAAAAC
1 TATATACGTCTTCAAAACTATTTTTAAAAAC
3138772 TATATA
1 TATATA
3138778 TTATAAGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 16 0.47
32 18 0.53
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.43
Consensus pattern (31 bp):
TATATACGTCTTCAAAACTATTTTTAAAAAC
Found at i:3138796 original size:67 final size:71
Alignment explanation
Indices: 3138682--3138816 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 71
3138672 TCAAAATGTT
*
3138682 TTCAAAAATATTTTCAAAACCATTATATTATATATGTTTTCAAAACTA-TTTTTTAAAAACTATA
1 TTCAAAAATATTTTAAAAACCATTATATTATATATGTTTTCAAAACTATTTTTTTAAAAACTATA
3138746 TACGTC
66 TACGTC
* *
3138752 TTCAAAACTATTTTAAAAACTA-TATATTATA-A-GTTTTCAAAACTATTTTTTTAAAAACTATA
1 TTCAAAAATATTTTAAAAACCATTATATTATATATGTTTTCAAAACTATTTTTTTAAAAACTATA
3138814 TAC
66 TAC
3138817 TATATGTTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
67 13 0.21
68 20 0.33
69 9 0.15
70 19 0.31
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (71 bp):
TTCAAAAATATTTTAAAAACCATTATATTATATATGTTTTCAAAACTATTTTTTTAAAAACTATA
TACGTC
Found at i:3138813 original size:38 final size:38
Alignment explanation
Indices: 3138705--3139039 Score: 144
Period size: 38 Copynumber: 8.6 Consensus size: 38
3138695 TCAAAACCAT
3138705 TATATTATATATGTTTTCAAAACTA-TTTTTTAAAAAC--
1 TATATTATA-A-GTTTTCAAAACTATTTTTTTAAAAACTA
* *
3138742 --TA-TATACGTCTTCAAAACTA---TTTTAAAAACTA
1 TATATTATAAGTTTTCAAAACTATTTTTTTAAAAACTA
3138774 TATATTATAAGTTTTCAAAACTATTTTTTTAAAAACTA
1 TATATTATAAGTTTTCAAAACTATTTTTTTAAAAACTA
* * *
3138812 TATACTATATGTTTTTCAAAACCATTTTAATATATATATATATA-TA
1 TATATTATAAG-TTTTCAAAACTATTTT--T-T-TA-A-A-A-ACTA
*** * * *
3138858 TATATATATATA-TATATGTTTTCAA-AACTTTTTAAAAACACTA
1 TATAT-TATA-AGT-T-T-TCAA-AACTATTTTTTTAAAA-ACTA
*
3138901 TATATTATAAG-TTTCAAAA--ATCGTTTTTAAAAACTATA
1 TATATTATAAGTTTTCAAAACTAT-TTTTTTAAAAAC--TA
* *** *
3138939 TATATTATACGTTTTCAAAACTATTTTAAAAAAAACTT
1 TATATTATAAGTTTTCAAAACTATTTTTTTAAAAACTA
* * * ** *
3138977 TATATTATACGTTTTAAAAAATACATTTTCAAAAACTA
1 TATATTATAAGTTTTCAAAACTATTTTTTTAAAAACTA
3139015 TATATTATATA-TTTTCAAAGACTAT
1 TATATTATA-AGTTTTCAAA-ACTAT
3139040 ATTTATTATA
Statistics
Matches: 225, Mismatches: 40, Indels: 64
0.68 0.12 0.19
Matches are distributed among these distances:
30 10 0.04
32 12 0.05
34 6 0.03
35 18 0.08
36 3 0.01
37 10 0.04
38 81 0.36
39 27 0.12
40 9 0.04
41 4 0.02
42 7 0.03
43 10 0.04
44 2 0.01
45 2 0.01
46 9 0.04
47 7 0.03
48 1 0.00
49 5 0.02
50 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (38 bp):
TATATTATAAGTTTTCAAAACTATTTTTTTAAAAACTA
Found at i:3138848 original size:2 final size:2
Alignment explanation
Indices: 3138841--3138874 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3138831 AACCATTTTA
3138841 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
3138875 GTTTTCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3138930 original size:89 final size:86
Alignment explanation
Indices: 3138772--3138947 Score: 187
Period size: 89 Copynumber: 2.0 Consensus size: 86
3138762 TTTTAAAAAC
* *
3138772 TATATATTATAAGTTTTCAAAACTATTTTTTTAAAAACTATATACTATATGTTTTTCAAAACCAT
1 TATATATTATAAGTTTTCAAAAC--TTTTTTAAAAAACTATATACTATAAG-TTTTCAAAACCAT
*
3138837 TTTAATATA-TATATATATATATATA
63 TTTAA-AAACTATATATAT-TATATA
* * **
3138862 TATATATATATATGTTTTCAAAAC-TTTTTAAAAACACTATATATTATAAG-TTTCAAAAATCGT
1 TATATAT-TATAAGTTTTCAAAACTTTTTTAAAAA-ACTATATACTATAAGTTTTC-AAAA-CCA
3138925 TTTTAAAAACTATATATATTATA
62 TTTTAAAAACTATATATATTATA
3138948 CGTTTTCAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
87 4 0.05
88 19 0.26
89 29 0.39
90 7 0.09
91 15 0.20
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (86 bp):
TATATATTATAAGTTTTCAAAACTTTTTTAAAAAACTATATACTATAAGTTTTCAAAACCATTTT
AAAAACTATATATATTATATA
Found at i:3138996 original size:76 final size:78
Alignment explanation
Indices: 3138860--3139044 Score: 231
Period size: 76 Copynumber: 2.4 Consensus size: 78
3138850 TATATATATA
*
3138860 TATATATATATATATGTTTTCAAAACT-TTTT-AAAAACACTATATATTATAAGTTTC-AAAAAT
1 TATATATATATATA-GTTTTCAAAACTATTTTAAAAAAAACTATATATTATAAGTTTCAAAAAAT
* *
3138922 -CGTTTTTAAAAAC
65 ACATTTTCAAAAAC
* * *
3138935 TATATATAT-TATACGTTTTCAAAACTATTTTAAAAAAAACTTTATATTATACGTTTTAAAAAAT
1 TATATATATATATA-GTTTTCAAAACTATTTTAAAAAAAACTATATATTATAAGTTTCAAAAAAT
3138999 ACATTTTCAAAAAC
65 ACATTTTCAAAAAC
3139013 TATATAT-TATATA-TTTTCAAAGACTATATTTA
1 TATATATATATATAGTTTTCAAA-ACTAT-TTTA
3139045 TTATATATAT
Statistics
Matches: 96, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
74 16 0.17
75 13 0.14
76 29 0.30
77 12 0.12
78 26 0.27
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.43
Consensus pattern (78 bp):
TATATATATATATAGTTTTCAAAACTATTTTAAAAAAAACTATATATTATAAGTTTCAAAAAATA
CATTTTCAAAAAC
Found at i:3139033 original size:24 final size:25
Alignment explanation
Indices: 3139001--3139052 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
3138991 TAAAAAATAC
3139001 ATTTTCAAAAACTATA-TATTATAT
1 ATTTTCAAAAACTATATTATTATAT
*
3139025 ATTTTCAAAGACTATATTTATTATAT
1 ATTTTCAAAAACTATA-TTATTATAT
3139051 AT
1 AT
3139053 ATTATGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 15 0.60
26 10 0.40
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTTTCAAAAACTATATTATTATAT
Found at i:3147215 original size:37 final size:37
Alignment explanation
Indices: 3147165--3147235 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
3147155 TGCCAACTTA
*
3147165 CCAAATTTGACAATTTGCAAGCCAAACCTAACAATTG
1 CCAAATTAGACAATTTGCAAGCCAAACCTAACAATTG
* *
3147202 CCAAATTAGACAATTTGCAAGTCAAATCTAACAA
1 CCAAATTAGACAATTTGCAAGCCAAACCTAACAA
3147236 ATCTCCACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.24
Consensus pattern (37 bp):
CCAAATTAGACAATTTGCAAGCCAAACCTAACAATTG
Found at i:3147235 original size:21 final size:20
Alignment explanation
Indices: 3147174--3147235 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
3147164 ACCAAATTTG
*
3147174 ACAATTTGCAAGCCAAACCTA
1 ACAATTTGCAAG-CAAATCTA
3147195 ACAA-TTGC---CAAAT-TA
1 ACAATTTGCAAGCAAATCTA
3147210 GACAATTTGCAAGTCAAATCTA
1 -ACAATTTGCAAG-CAAATCTA
3147232 ACAA
1 ACAA
3147236 ATCTCCACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
17 4 0.12
20 4 0.12
21 13 0.39
22 2 0.06
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (20 bp):
ACAATTTGCAAGCAAATCTA
Found at i:3156519 original size:72 final size:71
Alignment explanation
Indices: 3156321--3156521 Score: 226
Period size: 72 Copynumber: 2.8 Consensus size: 71
3156311 TATTTTGTTA
* * * * *
3156321 TATTCTCATTTTCCATGATTTTTTTTAAATTCGAAAGCATCGAAATTTGTGGAAAAATATCGATA
1 TATTCTCATTTTCCATG--TTTTTTTAAATTCGAAAGTATCGATACTTGTGGAAAATTATAGATA
*
3156386 CTTTGCAG
64 CTATGCAG
* *
3156394 TGTTCTCATTTTCCATGTTTTTTTAAAATTCGAAAGTATCGATACCCT-TGGAAAATTATAGATA
1 TATTCTCATTTTCCATGTTTTTTT-AAATTCGAAAGTATCGATA-CTTGTGGAAAATTATAGATA
**
3156458 CTATGTGG
64 CTATGCAG
* *
3156466 TATTCTCATTTTCCATGTTCTTTTT-AATTTGAAAGTATCTATACTTGTGGGAAAAT
1 TATTCTCATTTTCCATGTT-TTTTTAAATTCGAAAGTATCGATACTTGT-GGAAAAT
3156522 ATCAATATCA
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
70 2 0.02
71 24 0.22
72 61 0.56
73 22 0.20
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (71 bp):
TATTCTCATTTTCCATGTTTTTTTAAATTCGAAAGTATCGATACTTGTGGAAAATTATAGATACT
ATGCAG
Found at i:3157694 original size:23 final size:23
Alignment explanation
Indices: 3157668--3157712 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3157658 GAAAAAAATA
* *
3157668 ATATTTAAAATAATAAATTAAAC
1 ATATTGAAAATAAAAAATTAAAC
*
3157691 ATATTGAAATTAAAAAATTAAA
1 ATATTGAAAATAAAAAATTAAA
3157713 TAATGAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
ATATTGAAAATAAAAAATTAAAC
Found at i:3157760 original size:29 final size:27
Alignment explanation
Indices: 3157693--3157768 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 27
3157683 AATTAAACAT
3157693 ATTGAAATTAA-AAAATT-AAATAATG
1 ATTGAAATTAACAAAATTAAAATAATG
* * *
3157718 AGTAAAATAAACAAAATTAAAATAATAGG
1 ATTGAAATTAACAAAATTAAAATAAT--G
3157747 ATTGAAATTAACAATAA-TAAAA
1 ATTGAAATTAACAA-AATTAAAA
3157769 CTTATAGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
25 8 0.20
26 6 0.15
27 7 0.17
29 17 0.43
30 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (27 bp):
ATTGAAATTAACAAAATTAAAATAATG
Found at i:3158957 original size:3 final size:3
Alignment explanation
Indices: 3158949--3159039 Score: 58
Period size: 3 Copynumber: 29.7 Consensus size: 3
3158939 TATTTATTTA
* * * * * *
3158949 AAT AAT AAT ATAT AAT ATT AAT AAT AAT AATT ATT ATT ATT ATT ACT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
* * * *
3158996 -AT TAT AAT AAA AAT AAA AATT AAT AAT ACT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
3159040 AATGAAAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
2 1 0.01
3 64 0.89
4 7 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:3158972 original size:16 final size:16
Alignment explanation
Indices: 3158951--3159039 Score: 58
Period size: 16 Copynumber: 5.6 Consensus size: 16
3158941 TTTATTTAAA
3158951 TAATAATATATAA-TAT
1 TAATAATA-ATAATTAT
3158967 TAATAATAATAATTAT
1 TAATAATAATAATTAT
* * *
3158983 TATTATTATTACTATTA-
1 TAATAATAATA--ATTAT
* **
3159000 TAATAAAAATAAAAAT
1 TAATAATAATAATTAT
* *
3159016 TAATAATACTAA-TAA
1 TAATAATAATAATTAT
3159031 TAATAATAA
1 TAATAATAA
3159040 AATGAAAAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 9
0.71 0.18 0.12
Matches are distributed among these distances:
15 15 0.27
16 29 0.53
17 7 0.13
18 4 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATAATAATTAT
Found at i:3159427 original size:45 final size:45
Alignment explanation
Indices: 3159363--3159459 Score: 158
Period size: 45 Copynumber: 2.2 Consensus size: 45
3159353 CCCAAAGGCT
* * * *
3159363 TTTTGAACACATCATGCACTGAAGGGCTTACAGATGACCTGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGA
3159408 TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGA
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGA
3159453 TTTTGAA
1 TTTTGAA
3159460 TATCAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGA
Found at i:3159501 original size:119 final size:119
Alignment explanation
Indices: 3159290--3159511 Score: 309
Period size: 119 Copynumber: 1.9 Consensus size: 119
3159280 TAAAATCTCA
* ** * *** * *
3159290 TTTGAAAACATCTTGCACTGTTGGTCTTATGGATGAACCGAAGGTTTTGAATATCAAAAAGCTCC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGAACCGAAGATTTTGAATATCAAAAAACTCC
3159355 CAAAGGCTTTTTGAACACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGT
66 CAAAGGCTTTTTGAACACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGT
*
3159409 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGATTTTGAATATCAAAAAACTCC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGAACCGAAGATTTTGAATATCAAAAAACTCC
* * * * *
3159474 CGAAGGCTTTTTGAAGACATCCTGCACTGTAGGTCTTA
66 CAAAGGCTTTTTGAACACATCATGCACTGAAGGGCTTA
3159512 TGGATGGCCC
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
119 88 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (119 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAAATGAACCGAAGATTTTGAATATCAAAAAACTCC
CAAAGGCTTTTTGAACACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGT
Found at i:3159552 original size:22 final size:23
Alignment explanation
Indices: 3159491--3159553 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
3159481 TTTTTGAAGA
*
3159491 CATCCTGCACTGTAGGTCTTATG
1 CATCTTGCACTGTAGGTCTTATG
* * *
3159514 GA--TGGCCCTG-AGGTCTTAT-
1 CATCTTGCACTGTAGGTCTTATG
3159533 CATCTTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
3159554 CAGATGACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 11 0.37
22 8 0.27
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
CATCTTGCACTGTAGGTCTTATG
Found at i:3159604 original size:45 final size:45
Alignment explanation
Indices: 3159533--3159672 Score: 194
Period size: 45 Copynumber: 3.1 Consensus size: 45
3159523 GAGGTCTTAT
* * *
3159533 CATCTTGCACTG-TAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
1 CATCATGCACTGAAAGG-CTTAAAGATGACCCGAAGGCTTTGAAAA
*
3159578 CATCATGCACT-AAAGAGCTTATAGATGACCCGAAGGCTTTGAAAA
1 CATCATGCACTGAAAG-GCTTAAAGATGACCCGAAGGCTTTGAAAA
* *
3159623 CATCATGCACTGAAAGGCTTAAAGATGACCCGGAGGCTTTGGAAA
1 CATCATGCACTGAAAGGCTTAAAGATGACCCGAAGGCTTTGAAAA
3159668 CATCA
1 CATCA
3159673 AAAAGCTCCC
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
45 81 0.94
46 5 0.06
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (45 bp):
CATCATGCACTGAAAGGCTTAAAGATGACCCGAAGGCTTTGAAAA
Found at i:3159624 original size:206 final size:208
Alignment explanation
Indices: 3159364--3159780 Score: 633
Period size: 208 Copynumber: 2.0 Consensus size: 208
3159354 CCAAAGGCTT
* * * * *
3159364 TTTGAACACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTAAAGAGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTG
* * * *
3159429 AAGGGCTTACAA-ATGACCC-GAAGATTTTG-AATATCAAAAAACTCCCGAAGGCTTTTTGAAGA
66 AAAGGCTTA-AAGATGACCCGGAAGATTTGGAAACATCAAAAAACTCCCGAAGGCTTTTTGAAAA
* * *
3159491 CATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACA
130 CATCCTGCACTGTAGGTCCTATGGATGGCCATGAGGTCTTATCATCTTGCACTATAGGTCTTACA
3159556 GATGACCCGAAGGC
195 GATGACCCGAAGGC
*
3159570 TTTGAAAACATCATGCACTAAAGAGCTTATAGATGACCCGAAGGCTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTAAAGAGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTG
* * *
3159635 AAAGGCTTAAAGATGACCCGGAGGCTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
66 AAAGGCTTAAAGATGACCCGGAAGATTTGGAAACATCAAAAAACTCCCGAAGGCTTTTTGAAAAC
* *
3159700 ATCTTGCACTGTAGGTCCTATGGATGGCCATGCGGTCTTATCATCTTGCACTATAGGTCTTACAG
131 ATCCTGCACTGTAGGTCCTATGGATGGCCATGAGGTCTTATCATCTTGCACTATAGGTCTTACAG
*
3159765 ATGACCCGGAGGC
196 ATGACCCGAAGGC
3159778 TTT
1 TTT
3159781 AAATATCAAA
Statistics
Matches: 189, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
205 2 0.01
206 74 0.39
207 7 0.04
208 106 0.56
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (208 bp):
TTTGAAAACATCATGCACTAAAGAGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTG
AAAGGCTTAAAGATGACCCGGAAGATTTGGAAACATCAAAAAACTCCCGAAGGCTTTTTGAAAAC
ATCCTGCACTGTAGGTCCTATGGATGGCCATGAGGTCTTATCATCTTGCACTATAGGTCTTACAG
ATGACCCGAAGGC
Found at i:3159986 original size:45 final size:45
Alignment explanation
Indices: 3159922--3160015 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
3159912 CAAGAAGGCT
** **
3159922 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGA-CCTGAAGG
1 TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCTG-AGG
3159967 TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCTGAGG
1 TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCTGAGG
3160012 TTTT
1 TTTT
3160016 AAATATCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 40 0.91
46 4 0.09
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (45 bp):
TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCTGAGG
Found at i:3160028 original size:119 final size:119
Alignment explanation
Indices: 3159570--3160240 Score: 878
Period size: 119 Copynumber: 5.7 Consensus size: 119
3159560 ACCCGAAGGC
* ** * * *
3159570 TTTGAAAACATCATGCACTAAAGAG-CTTATAGATGACCCGAAGGCTTTGAAAACATCATGCACT
1 TTTGAAAACATCCTGCACTGTAG-GTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACT
* * * * *
3159634 GAAAGG-CTTAAAGATGACCCGGAGGCTTTGGAAACATCAAAAAGCTCCCGAAGGCTT
65 G-TAGGTCTTACAGATGACCCGGAGG-TTT-TAAATATCAAAAAGCTCCAGAAGGCTT
* * * * * * * **
3159691 TTTGAAAACATCTTGCACTGTAGGTCCTATGGATGGCCATG-CGGTCTT---ATCATCTTGCACT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACC-CGAAGGTTTTGAAAACATCAAGCACT
* * *
3159752 ATAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTT
65 GTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCAGAAGGCTT
* * * * **
3159807 TTTGAAAACATCTTGCACTGTAGGTCTTATGGATGGCCCTG-AGGTCTT---ATCATCTTGCACT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCC-GAAGGTTTTGAAAACATCAAGCACT
* *
3159868 ATAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCAAGAAGGCTT
65 GTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCAGAAGGCTT
*
3159923 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCTGAAGGTTTTGAAAACATCAAGCACTG
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACTG
* *
3159988 TAGGTCTTACAGATGACCCTGAGGTTTTAAATATCAAAAAGCTCCTGAAGGCTT
66 TAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCAGAAGGCTT
3160042 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACTG
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACTG
3160107 TAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCA-AAGGCTT
66 TAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCT-CCAGAAGGCTT
* *
3160161 TTTGAAAACATCCTGCACTGTAGGCCTTATGGATGACCCGGAGGTTTTGAAAACATCAAGCACTG
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACTG
3160226 TAGGTCTTACAGATG
66 TAGGTCTTACAGATG
3160241 TGGGAAATAG
Statistics
Matches: 501, Mismatches: 40, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
115 1 0.00
116 176 0.35
117 5 0.01
118 29 0.06
119 252 0.50
120 3 0.01
121 34 0.07
122 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (119 bp):
TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACTG
TAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCAGAAGGCTT
Found at i:3160105 original size:45 final size:45
Alignment explanation
Indices: 3160041--3160134 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
3160031 CCTGAAGGCT
** **
3160041 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGG
1 TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCGAAGG
*
3160086 TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCGGAGG
1 TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCGAAGG
3160131 TTTT
1 TTTT
3160135 AAATATCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCGAAGG
Found at i:3160928 original size:22 final size:22
Alignment explanation
Indices: 3160903--3161037 Score: 193
Period size: 22 Copynumber: 6.1 Consensus size: 22
3160893 AAATCCAAAA
* *
3160903 AATCTTTCATCTTTGAAAAGGG
1 AATCTATCATCTTTGAAAAGAG
3160925 AATCTATCATCTTTGAAGAA-AG
1 AATCTATCATCTTTGAA-AAGAG
3160947 AATCTATCATCTTTGAAGAA-AG
1 AATCTATCATCTTTGAA-AAGAG
3160969 AATCTATCATCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
* *
3160991 AATCTATCATCTTTGAAGAGTG
1 AATCTATCATCTTTGAAAAGAG
*
3161013 AATCTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
3161035 AAT
1 AAT
3161038 ACGCTAAACT
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
21 2 0.02
22 102 0.96
23 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:3160985 original size:66 final size:66
Alignment explanation
Indices: 3160903--3161037 Score: 225
Period size: 66 Copynumber: 2.0 Consensus size: 66
3160893 AAATCCAAAA
* *
3160903 AATCTTTCATCTTTGAAAAGGGAATCTATCATCTTTGAAGAAAGAATCTATCATCTTTGAAGAAA
1 AATCTATCATCTTTGAAAAGAGAATCTATCATCTTTGAAGAAAGAATCTATCATCTTTGAAGAAA
3160968 G
66 G
** *
3160969 AATCTATCATCTTTGAAAAGAGAATCTATCATCTTTGAAGAGTGAATCTATCATCTTTGAAGAGA
1 AATCTATCATCTTTGAAAAGAGAATCTATCATCTTTGAAGAAAGAATCTATCATCTTTGAAGAAA
3161034 G
66 G
3161035 AAT
1 AAT
3161038 ACGCTAAACT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (66 bp):
AATCTATCATCTTTGAAAAGAGAATCTATCATCTTTGAAGAAAGAATCTATCATCTTTGAAGAAA
G
Found at i:3162530 original size:41 final size:41
Alignment explanation
Indices: 3162401--3162539 Score: 104
Period size: 42 Copynumber: 3.3 Consensus size: 41
3162391 CTAATATACG
* * *
3162401 TTCAAAATGCGCCAAAATTCT-TGATTCTGATTGAAATGGGCT
1 TTCAAAATGCCCCAACATTCTAT--TTCTGATTGAAATGGACT
** * * * *
3162443 TTCAGCATGCCCC-ACATGAATC-ATTTCTGTTTGAATTAGACA
1 TTCAAAATGCCCCAACAT---TCTATTTCTGATTGAAATGGACT
*
3162485 TTCAAAATGCCCCAACATTCTATTTCTGGTTGAAATGGACT
1 TTCAAAATGCCCCAACATTCTATTTCTGATTGAAATGGACT
* *
3162526 TTCAAGATGTCCCA
1 TTCAAAATGCCCCA
3162540 CATGGATCTT
Statistics
Matches: 74, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
40 2 0.03
41 31 0.42
42 34 0.46
43 4 0.05
44 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (41 bp):
TTCAAAATGCCCCAACATTCTATTTCTGATTGAAATGGACT
Found at i:3164380 original size:18 final size:16
Alignment explanation
Indices: 3164365--3164428 Score: 83
Period size: 17 Copynumber: 3.8 Consensus size: 16
3164355 TCTTCTTTCC
3164365 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
* *
3164381 TTCTTCTTTTTCATCTCT
1 TTTTTCTTTTT--TCTTT
3164399 TTTTTCTTTTTTCTCTT
1 TTTTTCTTTTTTCT-TT
3164416 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
3164429 CGATGAATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 13 0.32
17 14 0.34
18 14 0.34
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:3164389 original size:9 final size:8
Alignment explanation
Indices: 3164365--3164427 Score: 74
Period size: 9 Copynumber: 7.5 Consensus size: 8
3164355 TCTTCTTTCC
3164365 TTTTTC-T
1 TTTTTCTT
3164372 TTTTTCTT
1 TTTTTCTT
3164380 TTTCTTCTT
1 TTT-TTCTT
*
3164389 TTTCATCTCT
1 TTT-TTCT-T
3164399 TTTTTCTT
1 TTTTTCTT
3164407 TTTTCTCTT
1 TTTT-TCTT
3164416 TTTTTCTT
1 TTTTTCTT
3164424 TTTT
1 TTTT
3164428 CCGATGAATG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
7 6 0.12
8 17 0.34
9 23 0.46
10 4 0.08
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:3164389 original size:27 final size:25
Alignment explanation
Indices: 3164351--3164428 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 25
3164341 TTGATTCAAT
3164351 TTTTTCTTCTTTCCTTTTTCTTTTTTC
1 TTTTTCTTCTTT--TTTTTCTTTTTTC
*
3164378 TTTTTCTTCTTTTTCATCTCTTTTTTC
1 TTTTTCTTCTTTTT--TTTCTTTTTTC
3164405 -TTTT-TTCTCTTTTTTTCTTTTTTC
1 TTTTTCTTCT-TTTTTTTCTTTTTTC
3164429 CGATGAATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
24 10 0.22
25 6 0.13
26 8 0.17
27 22 0.48
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTCTTCTTTTTTTTCTTTTTTC
Found at i:3164390 original size:14 final size:14
Alignment explanation
Indices: 3164351--3164390 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
3164341 TTGATTCAAT
*
3164351 TTTTTCTTCTTTCC
1 TTTTTCTTCTTTTC
3164365 TTTTTCTT-TTTTC
1 TTTTTCTTCTTTTC
3164378 TTTTTCTTCTTTT
1 TTTTTCTTCTTTT
3164391 TCATCTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:3164408 original size:7 final size:7
Alignment explanation
Indices: 3164350--3164428 Score: 63
Period size: 7 Copynumber: 11.0 Consensus size: 7
3164340 CTTGATTCAA
3164350 TTTTTTC
1 TTTTTTC
*
3164357 TTCTTTC
1 TTTTTTC
*
3164364 CTTTTTC
1 TTTTTTC
3164371 TTTTTTC
1 TTTTTTC
3164378 -TTTTTC
1 TTTTTTC
3164384 TTCTTTT-
1 TT-TTTTC
** *
3164391 TCATCTC
1 TTTTTTC
3164398 TTTTTTC
1 TTTTTTC
3164405 TTTTTTCTC
1 -TTTTT-TC
3164414 TTTTTTTC
1 -TTTTTTC
3164422 TTTTTTC
1 TTTTTTC
3164429 CGATGAATGA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 8 0.14
7 30 0.53
8 11 0.19
9 8 0.14
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:3167300 original size:35 final size:34
Alignment explanation
Indices: 3167234--3167325 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 34
3167224 AAATAGTTTG
*
3167234 AAAT-AAAATGTAATTATACAAAGATATAAATGCAAA
1 AAATGAAAATGTAA--ATACAAAG-TAAAAATGCAAA
3167270 AAATGAAAATGTAAATACAAACGTAAAAATGC-AA
1 AAATGAAAATGTAAATACAAA-GTAAAAATGCAAA
* * *
3167304 AAATGCAAATGCAAATGCAAAG
1 AAATGAAAATGTAAATACAAAG
3167326 ATGTAGAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
33 1 0.02
34 20 0.40
35 15 0.30
36 5 0.10
37 9 0.18
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.20
Consensus pattern (34 bp):
AAATGAAAATGTAAATACAAAGTAAAAATGCAAA
Found at i:3167565 original size:43 final size:44
Alignment explanation
Indices: 3167481--3167567 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 44
3167471 CGGTGCATCA
* * * *
3167481 AACAAAACTTTTATATGTAGGGGACATCTTTCAGTCATAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCATAACTTC
* * *
3167525 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCATAACTTC
3167568 TCTAAAGCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 28 0.78
44 8 0.22
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.32
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCACTCATAACTTC
Found at i:3168083 original size:35 final size:36
Alignment explanation
Indices: 3168014--3168084 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
3168004 TCTTACCGTA
* * * *
3168014 GAATGCTTTTGGTATCAATCTAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATATAAAAGGATATTTGTG
3168050 GAATACTTTTGGTAT-AATATAAAAGGATATTTGTG
1 GAATACTTTTGGTATCAATATAAAAGGATATTTGTG
3168085 TGCACGGCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (36 bp):
GAATACTTTTGGTATCAATATAAAAGGATATTTGTG
Found at i:3173255 original size:18 final size:18
Alignment explanation
Indices: 3173234--3173268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3173224 AGAACCCCAG
*
3173234 GGGGTATCGATTCCCCTA
1 GGGGAATCGATTCCCCTA
*
3173252 GGGGAATCGGTTCCCCT
1 GGGGAATCGATTCCCCT
3173269 TCAAAGGGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.29, G:0.31, T:0.26
Consensus pattern (18 bp):
GGGGAATCGATTCCCCTA
Found at i:3178355 original size:19 final size:19
Alignment explanation
Indices: 3178331--3178372 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
3178321 CCGAATCGAC
3178331 TCAAGAGGCGATTAAACCT
1 TCAAGAGGCGATTAAACCT
*
3178350 TCAAGAGGTGATTAAACCT
1 TCAAGAGGCGATTAAACCT
3178369 TCAA
1 TCAA
3178373 ATGAGTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (19 bp):
TCAAGAGGCGATTAAACCT
Found at i:3179569 original size:15 final size:13
Alignment explanation
Indices: 3179539--3179580 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
3179529 AAAATAATAT
3179539 TTAAAATATTAAA
1 TTAAAATATTAAA
3179552 TTAAACATATTGAAA
1 TTAAA-ATATT-AAA
*
3179567 TTAAAAAATTAAA
1 TTAAAATATTAAA
3179580 T
1 T
3179581 AATGACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 9 0.35
14 9 0.35
15 8 0.31
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
TTAAAATATTAAA
Found at i:3179626 original size:29 final size:27
Alignment explanation
Indices: 3179560--3179635 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 27
3179550 AATTAAACAT
3179560 ATTGAAATTAA-AAAATT-AAATAATG
1 ATTGAAATTAACAAAATTAAAATAATG
* * *
3179585 ACTAAAATAAACAAAATTAAAATAATATG
1 ATTGAAATTAACAAAATTAAAAT-A-ATG
3179614 ATTGAAATTAACAATAA-TAAAA
1 ATTGAAATTAACAA-AATTAAAA
3179636 CTTATAGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
25 8 0.20
26 6 0.15
27 4 0.10
28 1 0.03
29 19 0.47
30 2 0.05
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (27 bp):
ATTGAAATTAACAAAATTAAAATAATG
Found at i:3179857 original size:5 final size:5
Alignment explanation
Indices: 3179847--3179872 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3179837 GGGCAAAGAC
3179847 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
3179873 TCGAATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:3180885 original size:3 final size:3
Alignment explanation
Indices: 3180877--3180939 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
3180867 TATTTATTTA
* * * **
3180877 AAT AAT AAT AAT AAT AAT ATAT ATT ATT ATT AAT AAT AAT AAT TTT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
3180923 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
3180940 AATGAGAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:3181179 original size:20 final size:21
Alignment explanation
Indices: 3181140--3181180 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
3181130 TTCATAACAT
*
3181140 TTACCATTTATAACTTATTTTC
1 TTACCATATATAAC-TATTTTC
3181162 TTACCATATATAAC-ATTTT
1 TTACCATATATAACTATTTT
3181181 AGGTGCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
22 13 0.72
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (21 bp):
TTACCATATATAACTATTTTC
Found at i:3183779 original size:214 final size:214
Alignment explanation
Indices: 3183142--3183813 Score: 1005
Period size: 214 Copynumber: 3.2 Consensus size: 214
3183132 ATTTAATAAT
*
3183142 TAAATTGAACAAATATTAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGATG-A
1 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTG-TGAA
* * *
3183206 GGCATCAAATCAAAATAATTTTTAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATA
65 GG-ATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAC-AAAAAGTACTAAATTATA
*
3183271 CCCATTTAAAAAGTTATGGGCCAA-TGAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
128 CCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
* **
3183335 ATGCAAATCTAATTTGGAGGAC
193 ATGCAAATATAATTTTAAGGAC
* *
3183357 TAAATTAAACAAATATGAAATTACAAA-TAAAATTTTAAATAAATTAAACAACACA-A-----AG
1 TAAATTGAACAAATATGAAATTACAAATTAAAA-TTTAAATAAATTAAACAACACACATTGTGAA
*
3183415 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAGTACT--A--A-ACT
65 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAGTACTAAATTATACC
* *
3183475 CATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATAGGTCAATTTCATAT
130 CATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGAT
*
3183540 GCAAATATAGTTTTAAGGAC
195 GCAAATATAATTTTAAGGAC
*
3183560 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAACTAAACAACACACATTGTGAAG
1 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGTGAAG
*
3183625 GATCAAATCGAAGTAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAGGTACTAAATTATACC
66 GATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAA-GTACTAAATTATACC
* *
3183690 CATTT-AAAAGTTATGGGCCAATTAAAAAATAGAAATAGGTAATAAGTATGGGTCAATTTCAGAT
130 CATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGAT
3183754 GCAAATATAATTTTAAGGAC
195 GCAAATATAATTTTAAGGAC
* * *
3183774 TAAATTTAACAAATATAAAATTACAAATTTAAATTTAAAT
1 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAAT
3183814 TTAAATAAAT
Statistics
Matches: 414, Mismatches: 27, Indels: 33
0.87 0.06 0.07
Matches are distributed among these distances:
202 24 0.06
203 103 0.25
204 6 0.01
205 1 0.00
207 10 0.02
208 40 0.10
209 52 0.13
210 5 0.01
212 1 0.00
214 118 0.29
215 54 0.13
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (214 bp):
TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGTGAAG
GATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAGTACTAAATTATACCC
ATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGATG
CAAATATAATTTTAAGGAC
Found at i:3183847 original size:214 final size:212
Alignment explanation
Indices: 3183142--3183834 Score: 971
Period size: 203 Copynumber: 3.3 Consensus size: 212
3183132 ATTTAATAAT
* *
3183142 TAAATTGAACAAATATTAAATTACAAATT-AAAATTTAAATAAATTAAACAACACACATTGATGA
1 TAAATTAAACAAATATGAAATTACAAATTAAAAATTTAAATAAATTAAACAACACACA-T-A-GA
* * *
3183206 GGCATCAAATCAAAATAATTTTTAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATA
63 GG-ATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAC-AAAAAGTACTAAATTATA
*
3183271 CCCATTTAAAAAGTTATGGGCCAA-TGAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
126 CCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
* **
3183335 ATGCAAATCTAATTTGGAGGAC
191 ATGCAAATATAATTTTAAGGAC
*
3183357 TAAATTAAACAAATATGAAATTACAAA-TAAAATTTTAAATAAATTAAACAACACA-A-AG-GGA
1 TAAATTAAACAAATATGAAATTACAAATTAAAAATTTAAATAAATTAAACAACACACATAGAGGA
*
3183418 TCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAGTACT--A--A-ACTCAT
66 TCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAGTACTAAATTATACCCAT
* *
3183478 TTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATAGGTCAATTTCATATGCA
131 TTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGATGCA
*
3183543 AATATAGTTTTAAGGAC
196 AATATAATTTTAAGGAC
* * *
3183560 TAAATTGAACAAATATGAAATTACAAATT-AAAATTTAAATAAACTAAACAACACACATTGTGAA
1 TAAATTAAACAAATATGAAATTACAAATTAAAAATTTAAATAAATTAAACAACACACA-T-AG-A
*
3183624 GGATCAAATCGAAGTAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAGGTACTAAATTATAC
63 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAA-GTACTAAATTATAC
* *
3183689 CCATTT-AAAAGTTATGGGCCAATTAAAAAATAGAAATAGGTAATAAGTATGGGTCAATTTCAGA
127 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
3183753 TGCAAATATAATTTTAAGGAC
192 TGCAAATATAATTTTAAGGAC
* *
3183774 TAAATTTAACAAATATAAAATTACAAATTTAAATTTAAATTTAAATAAATTAAACAACACA
1 TAAATTAAACAAATATGAAATTACAAA-TT-AA---AAATTTAAATAAATTAAACAACACA
3183835 AAGATATCAA
Statistics
Matches: 429, Mismatches: 28, Indels: 37
0.87 0.06 0.07
Matches are distributed among these distances:
202 24 0.06
203 106 0.25
204 2 0.00
205 1 0.00
207 11 0.03
208 40 0.09
209 51 0.12
210 6 0.01
211 1 0.00
212 1 0.00
214 102 0.24
215 59 0.14
217 1 0.00
220 24 0.06
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (212 bp):
TAAATTAAACAAATATGAAATTACAAATTAAAAATTTAAATAAATTAAACAACACACATAGAGGA
TCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAGTACTAAATTATACCCAT
TTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGATGCA
AATATAATTTTAAGGAC
Found at i:3183927 original size:2 final size:2
Alignment explanation
Indices: 3183911--3184125 Score: 116
Period size: 2 Copynumber: 110.5 Consensus size: 2
3183901 ATTTCAAAAG
* * * *
3183911 TA TA TG TA T- TA TA TA TA TA AA CTA TA TA -A TT TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* *
3183952 T- TA T- TA TA TA CTA TA TA AA CTA TA T- TA TA TC TA TA TA TA T-
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
** * * *
3183992 TA CG TA AA AA CTA TA TA TA TA TA TA TA T- TA TA T- TA TG TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
3184033 -A TA TA AA TA -A TA TA T- TG TA TA AA T- TA TA TA GTT TA TCA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T-A TA
*
3184072 TA TA AA CTA TA TA GT- 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
3184115 TA TA TA TA TA T
1 TA TA TA TA TA T
3184126 GGTTTAAGGT
Statistics
Matches: 162, Mismatches: 29, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
1 14 0.09
2 139 0.86
3 9 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3184032 original size:9 final size:9
Alignment explanation
Indices: 3183911--3184125 Score: 92
Period size: 9 Copynumber: 23.0 Consensus size: 9
3183901 ATTTCAAAAG
*
3183911 TATATGTAT
1 TATATATAT
3183920 TATATATAT
1 TATATATAT
*
3183929 AAACTATATAAT
1 -TA-TATAT-AT
3183941 T-TATAT-T
1 TATATATAT
3183948 TATAT-TAT
1 TATATATAT
3183956 TATATACTA-
1 TATATA-TAT
*
3183965 TATA-A-AC
1 TATATATAT
3183972 TATATTATAT
1 TATA-TATAT
3183982 CTATATATAT
1 -TATATATAT
* * *
3183992 TACGTAAAAAC
1 TA--TATATAT
3184003 TATATATA-
1 TATATATAT
3184011 TATATATAT
1 TATATATAT
3184020 TATAT-TAT
1 TATATATAT
3184028 GTATA-ATAT
1 -TATATATAT
*
3184037 AAATAATATAT
1 -TAT-ATATAT
* *
3184048 TGTATAAAT
1 TATATATAT
3184057 TATATAGT-T
1 TATATA-TAT
3184066 TATCA-ATAT
1 TAT-ATATAT
*
3184075 AAACTATATAGT
1 -TA-TATATA-T
3184087 TATATATAT
1 TATATATAT
3184096 ATATATATAT
1 -TATATATAT
3184106 ATATATATAT
1 -TATATATAT
3184116 ATATATATAT
1 -TATATATAT
3184126 GGTTTAAGGT
Statistics
Matches: 161, Mismatches: 18, Indels: 53
0.69 0.08 0.23
Matches are distributed among these distances:
6 1 0.01
7 7 0.04
8 22 0.14
9 55 0.34
10 49 0.30
11 24 0.15
12 3 0.02
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (9 bp):
TATATATAT
Found at i:3184285 original size:22 final size:22
Alignment explanation
Indices: 3184260--3184416 Score: 66
Period size: 22 Copynumber: 7.2 Consensus size: 22
3184250 ACTATATATA
3184260 ATATATAGTTTACATATGAACT
1 ATATATAGTTTACATATGAACT
* **
3184282 ATATGTA-TAAAC-TAT-ATA-T
1 ATATATAGTTTACATATGA-ACT
3184301 AATATATAGTTTACATATGAACT
1 -ATATATAGTTTACATATGAACT
* ** *
3184324 ATATGTA-TAAACTATATAAACT
1 ATATATAGTTTAC-ATATGAACT
*
3184346 ATATATA---TAAATTATGTAA--
1 ATATATAGTTTACA-TATG-AACT
*
3184365 ACTATATAGTTTACATATGACCTAT
1 A-TATATAGTTTACATATGAAC--T
*
3184390 ATATATAGTTTA-TTAGTGAACT
1 ATATATAGTTTACATA-TGAACT
3184412 ATATA
1 ATATA
3184417 AACTATTTAT
Statistics
Matches: 99, Mismatches: 18, Indels: 36
0.65 0.12 0.24
Matches are distributed among these distances:
19 4 0.04
20 20 0.20
21 12 0.12
22 40 0.40
23 7 0.07
24 15 0.15
25 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (22 bp):
ATATATAGTTTACATATGAACT
Found at i:3184294 original size:13 final size:13
Alignment explanation
Indices: 3184273--3184356 Score: 50
Period size: 13 Copynumber: 6.5 Consensus size: 13
3184263 TATAGTTTAC
*
3184273 ATATGAACTATAT
1 ATATAAACTATAT
*
3184286 GTATAAACTATAT
1 ATATAAACTATAT
* * *
3184299 ATAATATATAGTTTAC
1 AT-ATA-A-ACTATAT
*
3184315 ATATGAACTATAT
1 ATATAAACTATAT
*
3184328 GTATAAAC----T
1 ATATAAACTATAT
3184337 ATATAAACTATAT
1 ATATAAACTATAT
3184350 ATATAAA
1 ATATAAA
3184357 TTATGTAAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 14
0.65 0.17 0.18
Matches are distributed among these distances:
9 8 0.16
13 30 0.59
14 4 0.08
15 3 0.06
16 6 0.12
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:3184304 original size:42 final size:42
Alignment explanation
Indices: 3184239--3184350 Score: 194
Period size: 42 Copynumber: 2.7 Consensus size: 42
3184229 ACTAACTTAT
3184239 ACTATATG--TAAACTATATATAATATATAGTTTACATATGA
1 ACTATATGTATAAACTATATATAATATATAGTTTACATATGA
3184279 ACTATATGTATAAACTATATATAATATATAGTTTACATATGA
1 ACTATATGTATAAACTATATATAATATATAGTTTACATATGA
3184321 ACTATATGTATAAACTATATA-AACTATATA
1 ACTATATGTATAAACTATATATAA-TATATA
3184351 TATAAATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
40 8 0.12
41 2 0.03
42 59 0.86
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.39
Consensus pattern (42 bp):
ACTATATGTATAAACTATATATAATATATAGTTTACATATGA
Found at i:3184355 original size:64 final size:64
Alignment explanation
Indices: 3184273--3184396 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
3184263 TATAGTTTAC
* * *
3184273 ATATGAACTATATGTATAAACTATATATAA-TATATAGTTTACATATGAACTATATGTATAAACT
1 ATATAAACTATATATATAAACTATATA-AACTATATAGTTTACATATGAACTATATATATAAACT
* * *
3184337 ATATAAACTATATATATAAATTATGTAAACTATATAGTTTACATATGACCTATATATATA
1 ATATAAACTATATATATAAACTATATAAACTATATAGTTTACATATGAACTATATATATA
3184397 GTTTATTAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (64 bp):
ATATAAACTATATATATAAACTATATAAACTATATAGTTTACATATGAACTATATATATAAACT
Found at i:3184413 original size:24 final size:24
Alignment explanation
Indices: 3184367--3184447 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
3184357 TTATGTAAAC
* *
3184367 TATATAGTTTACATA-TGACCTATA
1 TATATAGTTTA-TTAGTGAACTATA
3184391 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTATTAGTGAACTATA
* *
3184415 TAAACTA-TTTATATAGTATATACTATA
1 TATA-TAGTTTAT-TAGT-GA-ACTATA
3184442 TATATA
1 TATATA
3184448 AATTATAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 27 0.57
25 6 0.13
26 3 0.06
27 9 0.19
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (24 bp):
TATATAGTTTATTAGTGAACTATA
Found at i:3184415 original size:64 final size:62
Alignment explanation
Indices: 3184260--3184416 Score: 154
Period size: 64 Copynumber: 2.4 Consensus size: 62
3184250 ACTATATATA
3184260 ATATATAGTTTACATATGAACTATATGTATAAACTATATATAATATATAGTTTACATATGAACTA
1 ATATATAGTTT--ATATGAACTATA--TATAAACTATATATAATATATAGTTTACATATGAACTA
3184325 T
62 T
* *** * * * *
3184326 ATGTATAAACTATATAAACTATATATATAAAT-TATGTAAACTATATAGTTTACATATGACCTAT
1 ATATATAGTTTATATGAACTATATATA-AACTATATAT-AA-TATATAGTTTACATATGAACTAT
3184390 ATATATAGTTTATTAGTGAACTATATA
1 ATATATAGTTTA-TA-TGAACTATATA
3184417 AACTATTTAT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
62 8 0.11
63 5 0.07
64 41 0.56
65 2 0.03
66 17 0.23
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (62 bp):
ATATATAGTTTATATGAACTATATATAAACTATATATAATATATAGTTTACATATGAACTAT
Found at i:3184429 original size:2 final size:2
Alignment explanation
Indices: 3184424--3184713 Score: 56
Period size: 2 Copynumber: 145.0 Consensus size: 2
3184414 ATAAACTATT
* *
3184424 TA TA TA GTA TA TA CTA TA TA TA TA AA T- TA TA GTT TA TA -A T-
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
3184464 TA TA CA CTA CA TA CTA TA GTT TA TA TT TA TA TA -A 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
* * * * * *
3184506 TT TA TA TA CTA TT TA TA TA AA CTA TA AA AA GTA TA TA GTG TA TA
1 TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA
* * * *
3184550 -A AA TA TA -A TT TA TA T- TA -A TA TA CTA TA TA TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * ** * * * *
3184589 TA TA TT TA AA CTA TA TA GG TA CA AA CTA TA TA -A AA TA TA TA GTT
1 TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* * *
3184633 TA TA AA T- TA TA AA T- TA TA T- TA -A TA TA GTA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
3184672 TG TA TA -A CTA -A TA TA -A GTA -A 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
3184712 TA
1 TA
3184714 AACACTATGC
Statistics
Matches: 203, Mismatches: 51, Indels: 68
0.63 0.16 0.21
Matches are distributed among these distances:
1 17 0.08
2 163 0.80
3 23 0.11
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:3184507 original size:17 final size:17
Alignment explanation
Indices: 3184485--3184596 Score: 61
Period size: 17 Copynumber: 6.5 Consensus size: 17
3184475 TACTATAGTT
3184485 TATATTTATATAATATA
1 TATATTTATATAATATA
* *
3184502 TATATTTATATACTATT
1 TATATTTATATAATATA
** *
3184519 TATATAAACTATAAAAAGTA
1 TATATTTA-TAT-AATA-TA
*
3184539 TATAGTGTATA-AA-ATA
1 TATA-TTTATATAATATA
3184555 TA-ATTTATATTAATATA
1 TATATTTATA-TAATATA
* * *
3184572 CTATATATATGT-ATGTA
1 -TATATTTATATAATATA
3184589 TATATTTA
1 TATATTTA
3184597 AACTATATAG
Statistics
Matches: 72, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
14 5 0.07
15 1 0.01
16 13 0.18
17 29 0.40
18 8 0.11
19 7 0.10
20 7 0.10
21 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (17 bp):
TATATTTATATAATATA
Found at i:3184518 original size:11 final size:10
Alignment explanation
Indices: 3184485--3184524 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 10
3184475 TACTATAGTT
3184485 TATATTTATA
1 TATATTTATA
3184495 TA-A--TATA
1 TATATTTATA
3184502 TATATTTATA
1 TATATTTATA
3184512 TACTATTTATA
1 TA-TATTTATA
3184523 TA
1 TA
3184525 AACTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
7 6 0.23
8 1 0.04
9 1 0.04
10 8 0.31
11 10 0.38
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (10 bp):
TATATTTATA
Found at i:3184694 original size:28 final size:28
Alignment explanation
Indices: 3184652--3184707 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
3184642 TAAATTATAT
* *
3184652 TAATATAGTATATATATGTATGTATAAC
1 TAATATAGTATATATATATATATATAAC
3184680 TAATATAAGTAATATATATATATATATA
1 TAATAT-AGT-ATATATATATATATATA
3184708 TATATAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 3 0.12
30 15 0.62
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (28 bp):
TAATATAGTATATATATATATATATAAC
Found at i:3184707 original size:87 final size:86
Alignment explanation
Indices: 3184502--3184677 Score: 239
Period size: 87 Copynumber: 2.0 Consensus size: 86
3184492 ATATAATATA
* * * *
3184502 TATATTTATATACTATTTATATAAACTATA-AAAAGTATATAGTGTATAAAATATAATTTATATT
1 TATATATATAAACTATATATATAAACTATATAAAAGTATATAGTGTATAAAATATAAATTATATT
3184566 AATATACTATATATATGTATG
66 AATATACTATATATATGTATG
* * * *
3184587 TATATATTTAAACTATATAGGTACAAACTATATAAAA-TATATAGTTTATAAATTATAAATTATA
1 TATATATATAAACTATATA--TATAAACTATATAAAAGTATATAGTGTATAAAATATAAATTATA
*
3184651 TTAATATAGTATATATATGTATG
64 TTAATATACTATATATATGTATG
3184674 TATA
1 TATA
3184678 ACTAATATAA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
85 15 0.19
87 60 0.76
88 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (86 bp):
TATATATATAAACTATATATATAAACTATATAAAAGTATATAGTGTATAAAATATAAATTATATT
AATATACTATATATATGTATG
Found at i:3184851 original size:20 final size:21
Alignment explanation
Indices: 3184826--3184930 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 21
3184816 CTTATAGTAC
*
3184826 ATGTATGTATAAACTATGTAT
1 ATGTATATATAAACTATGTAT
*
3184847 A-GTATATACAAACTA--TAT
1 ATGTATATATAAACTATGTAT
*
3184865 A--TATATATAACCTATAGTAT
1 ATGTATATATAAACTAT-GTAT
*
3184885 ATGTATATATACAATCTATTTAT
1 ATGTATATATA-AA-CTATGTAT
3184908 ATGT-TATATAAACTA--TAT
1 ATGTATATATAAACTATGTAT
3184926 ATGTA
1 ATGTA
3184931 ACCTATAGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
17 11 0.16
18 11 0.16
20 19 0.27
21 3 0.04
22 14 0.20
23 8 0.11
24 4 0.06
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (21 bp):
ATGTATATATAAACTATGTAT
Found at i:3184871 original size:17 final size:17
Alignment explanation
Indices: 3184844--3184886 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
3184834 ATAAACTATG
3184844 TATAGTATATACAAACTA
1 TATA-TATATACAAACTA
* *
3184862 TATATATATATAACCTA
1 TATATATATACAAACTA
3184879 TAGTATAT
1 TA-TATAT
3184887 GTATATATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (17 bp):
TATATATATACAAACTA
Found at i:3184882 original size:59 final size:61
Alignment explanation
Indices: 3184805--3184927 Score: 162
Period size: 59 Copynumber: 2.0 Consensus size: 61
3184795 ATATGTAAAT
* * *
3184805 TATATATGTAACTTATAGTACATGTATGTATA-AA-CTATGTATA-GTATATACAAACTATA
1 TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGT-TATACAAACTATA
* * *
3184864 TATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGTTATATAAACTATA
1 TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGTTATACAAACTATA
3184925 TAT
1 TAT
3184928 GTAACCTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 28 0.51
60 2 0.04
61 23 0.42
62 2 0.04
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (61 bp):
TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGTTATACAAACTATA
Found at i:3184995 original size:21 final size:21
Alignment explanation
Indices: 3184970--3185022 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
3184960 TAGTGTACTA
* *
3184970 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
*
3184991 TATAGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
3185012 TATAGTTTATA
1 TATAGTTTATA
3185023 TTAATGTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:3185132 original size:21 final size:21
Alignment explanation
Indices: 3184969--3185132 Score: 70
Period size: 21 Copynumber: 7.6 Consensus size: 21
3184959 TTAGTGTACT
* *
3184969 ATATAGTTTATACTTTATAAC
1 ATATAGTATATAATTTATAAC
*
3184990 CTATAGTATATAATTTATAA-
1 ATATAGTATATAATTTATAAC
* * *
3185010 ACTATAGTTTAT-ATTAATGTAC
1 A-TATAGTATATAATTTAT-AAC
*
3185032 TATATAGTTTATATTAATGT-TAA-
1 -ATATAG--TATA-TAATTTATAAC
* **
3185055 TTATCTTAACTATAATTTATATTA-
1 ATATAGT-A-TATAATTTATA--AC
*
3185079 ATATAGTATATAGTTTATAA-
1 ATATAGTATATAATTTATAAC
*
3185099 ACTATACTATATAATTTATAAC
1 A-TATAGTATATAATTTATAAC
*
3185121 ATATAGTTTATA
1 ATATAGTATATA
3185133 TTAATATTAA
Statistics
Matches: 105, Mismatches: 23, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
20 8 0.08
21 59 0.56
22 23 0.22
23 2 0.02
24 9 0.09
25 2 0.02
26 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATAGTATATAATTTATAAC
Found at i:3185143 original size:88 final size:89
Alignment explanation
Indices: 3184991--3185170 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 89
3184981 CTTTATAACC
* * * *
3184991 TATAGTATATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATATTAATGTTAAT
1 TATAGTATATAATTTATAAACTATACTATATATTAATGAACTATATAGTTTATATTAATATTAAT
3185056 TATCT-TA-ACTATAATTTATATTAA
66 T-T-TATAGACTATAATTTATATTAA
* *
3185080 TATAGTATATAGTTTATAAACTATACTATATAATTTAT-AAC-ATATAGTTTATATTAATATTAA
1 TATAGTATATAATTTATAAACTATACTATAT-ATTAATGAACTATATAGTTTATATTAATATTAA
**
3185143 TTTTATAGACTATGTTTTATATTAA
65 TTTTATAGACTATAATTTATATTAA
3185168 TAT
1 TAT
3185171 TAATTACAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
86 1 0.01
87 3 0.04
88 41 0.51
89 30 0.38
90 5 0.06
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (89 bp):
TATAGTATATAATTTATAAACTATACTATATATTAATGAACTATATAGTTTATATTAATATTAAT
TTTATAGACTATAATTTATATTAA
Found at i:3185185 original size:88 final size:87
Alignment explanation
Indices: 3185004--3185233 Score: 211
Period size: 88 Copynumber: 2.6 Consensus size: 87
3184994 AGTATATAAT
* * *
3185004 TTATAAACTATAGTTTATATTAATGT-ACTATATAGTTTATATTAATGTTAATTATCTTAACTAT
1 TTATAAACTATA--CTATATTAATATAAC-ATATAGTTTATATTAATATTAATTATCTTAACTAT
* * **
3185068 AATTTATATTAATATAGTATATAGT
63 AATTTATATTAATATAATATACAAA
3185093 TTATAAACTATACTATA-TAATTTATAACATATAGTTTATATTAATATTAATT-T-TATAGACTA
1 TTATAAACTATACTATATTAA--TATAACATATAGTTTATATTAATATTAATTATCT-TA-ACTA
**
3185155 TGTTTTATATTAATATTAAT-TACAAA
62 TAATTTATATTAATA-TAATATACAAA
* * ** *
3185181 TTATAACCTATATTATATTAATATAAGTTAATA-TTAATATTAATATTAATTAT
1 TTATAAACTATACTATATTAATATAACAT-ATAGTTTATATTAATATTAATTAT
3185234 AATATATAAT
Statistics
Matches: 118, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
86 4 0.03
87 30 0.25
88 64 0.54
89 20 0.17
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (87 bp):
TTATAAACTATACTATATTAATATAACATATAGTTTATATTAATATTAATTATCTTAACTATAAT
TTATATTAATATAATATACAAA
Found at i:3185185 original size:110 final size:109
Alignment explanation
Indices: 3184969--3185185 Score: 233
Period size: 110 Copynumber: 2.0 Consensus size: 109
3184959 TTAGTGTACT
* * *
3184969 ATATAGTTTATACTTTATAACCTATAGTATATAATTTATAAACTATAGTTTATATTAATGTACTA
1 ATATAGTATATACTTTATAAACTATACTATATAATTTATAAACTATAGTTTATATTAATGTACTA
** * * *
3185034 TATAGTTTATATTAATGTTAATTATCTTAACTATAATTTATATTA
66 TATAGACTATATTAATATTAATTA-CTTAACTACAAATTATATTA
* *
3185079 ATATAGTATATAGTTTATAAACTATACTATATAATTTAT-AACATATAGTTTATATTAATATTAA
1 ATATAGTATATACTTTATAAACTATACTATATAATTTATAAAC-TATAGTTTATATTAAT-GT-A
* * * * *
3185143 TTTTATAGACTATGTTTTATATTAA-TA-TTAATTACAAATTATA
63 CTATATAGACTAT-ATTAATATTAATTACTTAACTACAAATTATA
3185186 ACCTATATTA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
109 3 0.03
110 64 0.73
111 1 0.01
112 12 0.14
113 8 0.09
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (109 bp):
ATATAGTATATACTTTATAAACTATACTATATAATTTATAAACTATAGTTTATATTAATGTACTA
TATAGACTATATTAATATTAATTACTTAACTACAAATTATATTA
Found at i:3185217 original size:6 final size:6
Alignment explanation
Indices: 3185190--3185243 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
3185180 ATTATAACCT
*
3185190 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATTA ATATTA AT-TATA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATAT-TA
3185235 ATATATA AT
1 ATAT-TA AT
3185244 TATAATGTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 12 0.29
6 24 0.57
7 6 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:3185245 original size:13 final size:13
Alignment explanation
Indices: 3185179--3185259 Score: 64
Period size: 13 Copynumber: 6.5 Consensus size: 13
3185169 ATTAATTACA
**
3185179 AATTATAACCTAT
1 AATTATAATATAT
*
3185192 -ATTATATTAATAT
1 AATTATAAT-ATAT
*
3185205 AAGT-TAATAT-T
1 AATTATAATATAT
3185216 AA-TATTAATAT-T
1 AATTA-TAATATAT
3185228 AATTATAATATAT
1 AATTATAATATAT
*
3185241 AATTATAATGTAT
1 AATTATAATATAT
3185254 AATTAT
1 AATTAT
3185260 TTTAATATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.02
11 3 0.05
12 23 0.41
13 27 0.48
14 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
AATTATAATATAT
Found at i:3185254 original size:20 final size:18
Alignment explanation
Indices: 3185215--3185276 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 18
3185205 AAGTTAATAT
3185215 TAATATTAATATTAATTA
1 TAATATTAATATTAATTA
3185233 TAATATATAAT-TATAATGTA
1 TAATAT-TAATAT-TAAT-TA
3185253 TAATTATTTTAATATTAATTA
1 TAA-TA--TTAATATTAATTA
3185274 TAA
1 TAA
3185277 ATAGTTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
18 7 0.19
19 8 0.22
20 5 0.14
21 7 0.19
22 8 0.22
23 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATATTAATATTAATTA
Found at i:3187611 original size:23 final size:23
Alignment explanation
Indices: 3187563--3187617 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
3187553 CTTAATGCAG
*
3187563 GATGCTTGCTGAATTGATGCAAT
1 GATGCTTGCTGAATTGATACAAT
* * *
3187586 GATGCTTGTTGAATTGGTACATT
1 GATGCTTGCTGAATTGATACAAT
*
3187609 GATGTTTGC
1 GATGCTTGC
3187618 CGGTTGCTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (23 bp):
GATGCTTGCTGAATTGATACAAT
Found at i:3188212 original size:13 final size:13
Alignment explanation
Indices: 3188193--3188230 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
3188183 TAATTTAGTG
3188193 ATTATAAATAA-A
1 ATTATAAATAAGA
3188205 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
3188220 ATTATAAATAA
1 ATTATAAATAA
3188231 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:3188230 original size:18 final size:18
Alignment explanation
Indices: 3188209--3188292 Score: 71
Period size: 18 Copynumber: 4.5 Consensus size: 18
3188199 AATAAAATTT
*
3188209 ATAATATAAGAATTATAA
1 ATAATATAAGAATTAGAA
3188227 ATAATATAAAGAATTAGAA
1 ATAATAT-AAGAATTAGAA
* * *
3188246 TTAATATAAAAATCAGAA
1 ATAATATAAGAATTAGAA
*
3188264 TTATAATATACA-AATTATAA
1 --ATAATATA-AGAATTAGAA
*
3188284 TTAATATAA
1 ATAATATAA
3188293 AAACTAAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.02
18 23 0.43
19 16 0.30
20 13 0.24
21 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATATAAGAATTAGAA
Found at i:3191996 original size:63 final size:64
Alignment explanation
Indices: 3191924--3192055 Score: 151
Period size: 64 Copynumber: 2.1 Consensus size: 64
3191914 TTTTCCGTTA
* * * * * *
3191924 GAAAGTTTGTTCA-TTTCGACAGAAAATAT-CAATTTAATTTATGGTGGAACAATGATTCCGTCG
1 GAAATTTTGTTCACTTT-AACAAAAAATATACAATTTAATTTATGATGGAACAATCATTCCATCG
* * * *
3191987 GAAATTTTGTTCACTTTAATAAAAAATATACCATTTAATTTGTGATGGAATAATCATTCCATCG
1 GAAATTTTGTTCACTTTAACAAAAAATATACAATTTAATTTATGATGGAACAATCATTCCATCG
3192051 GAAAT
1 GAAAT
3192056 AAAAAAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
63 21 0.37
64 36 0.63
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (64 bp):
GAAATTTTGTTCACTTTAACAAAAAATATACAATTTAATTTATGATGGAACAATCATTCCATCG
Found at i:3193908 original size:65 final size:65
Alignment explanation
Indices: 3193801--3193960 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 65
3193791 GAATAAATTG
* *
3193801 AACATCGAATGCATTTCATGCATCGATGCA-CATACTACGCATCGATGCACGAAGAGT-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACCATACCACGCATCGATGCACGAAGACTATTT-TG
3193864 AA
65 -A
* * * * ***
3193866 AACATCGAATGAATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGACTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACCATACCACGCATCGATGCACGAAGACTATTTTGA
* *
3193930 AACATCGAATGCATTTTATGCATGGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
3193961 TCTTAGTGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 29 0.36
65 47 0.58
66 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACCATACCACGCATCGATGCACGAAGACTATTTTGA
Found at i:3197308 original size:20 final size:22
Alignment explanation
Indices: 3197283--3197322 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3197273 TGTTGTATAT
3197283 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
3197303 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
3197323 TTTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:3197454 original size:20 final size:20
Alignment explanation
Indices: 3197425--3197498 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
3197415 GTAGCCTTCG
*
3197425 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* **
3197445 TGCATCGATGCACAACCTTGA
1 TGCATCGATGCAC-AGCAGGA
*
3197466 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
3197486 TGCATCGATGCAC
1 TGCATCGATGCAC
3197499 TAATTGCATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 28 0.62
21 17 0.38
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:3197677 original size:29 final size:29
Alignment explanation
Indices: 3197656--3197713 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
3197646 AAACTTTGAA
3197656 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
3197685 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
3197714 TTCCTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:3197703 original size:30 final size:30
Alignment explanation
Indices: 3197656--3197714 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
3197646 AAACTTTGAA
3197656 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
3197685 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
3197715 TCCTTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:3199031 original size:19 final size:20
Alignment explanation
Indices: 3198988--3199035 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
3198978 TCTAAATCCT
*
3198988 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
3199008 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
3199027 TTTTCAAAA
1 TTTTCAAAA
3199036 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:3199929 original size:32 final size:34
Alignment explanation
Indices: 3199893--3199961 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
3199883 CTTACAAACC
* *
3199893 CCCTAG-TTTT-TTCGGGCTAAACTAGAACCTTT
1 CCCTAGCTTTTATACGGGATAAACTAGAACCTTT
* *
3199925 CCCTAGCTTTTATACGGGATTAGCTAGAACCTTT
1 CCCTAGCTTTTATACGGGATAAACTAGAACCTTT
3199959 CCC
1 CCC
3199962 CTTTACAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 6 0.19
33 4 0.13
34 21 0.68
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.35
Consensus pattern (34 bp):
CCCTAGCTTTTATACGGGATAAACTAGAACCTTT
Found at i:3200202 original size:20 final size:22
Alignment explanation
Indices: 3200177--3200216 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3200167 TGTTGTATAT
3200177 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
3200197 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
3200217 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:3200360 original size:20 final size:20
Alignment explanation
Indices: 3200335--3200444 Score: 148
Period size: 20 Copynumber: 5.4 Consensus size: 20
3200325 TTCGTGTATG
3200335 GATGCACAGCAGGATGCATC
1 GATGCACAGCAGGATGCATC
**
3200355 GATGCACAGCCTTGATGCATC
1 GATGCACAG-CAGGATGCATC
*
3200376 GATGCACAGAAGGATGCATC
1 GATGCACAGCAGGATGCATC
**
3200396 GATGCACAGCCTTGATGCATC
1 GATGCACAG-CAGGATGCATC
*
3200417 GATGCACAGAAGGATGCATC
1 GATGCACAGCAGGATGCATC
3200437 GATGCACA
1 GATGCACA
3200445 ACCTTGATGC
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
20 42 0.55
21 35 0.45
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (20 bp):
GATGCACAGCAGGATGCATC
Found at i:3200365 original size:41 final size:41
Alignment explanation
Indices: 3200335--3200460 Score: 234
Period size: 41 Copynumber: 3.1 Consensus size: 41
3200325 TTCGTGTATG
*
3200335 GATGCACAGCAGGATGCATCGATGCACAGCCTTGATGCATC
1 GATGCACAGAAGGATGCATCGATGCACAGCCTTGATGCATC
3200376 GATGCACAGAAGGATGCATCGATGCACAGCCTTGATGCATC
1 GATGCACAGAAGGATGCATCGATGCACAGCCTTGATGCATC
*
3200417 GATGCACAGAAGGATGCATCGATGCACAACCTTGATGCATC
1 GATGCACAGAAGGATGCATCGATGCACAGCCTTGATGCATC
3200458 GAT
1 GAT
3200461 AAACTAATTG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (41 bp):
GATGCACAGAAGGATGCATCGATGCACAGCCTTGATGCATC
Found at i:3200373 original size:21 final size:21
Alignment explanation
Indices: 3200347--3200460 Score: 151
Period size: 21 Copynumber: 5.5 Consensus size: 21
3200337 TGCACAGCAG
3200347 GATGCATCGATGCACAGCCTT
1 GATGCATCGATGCACAGCCTT
***
3200368 GATGCATCGATGCACAG-AAG
1 GATGCATCGATGCACAGCCTT
3200388 GATGCATCGATGCACAGCCTT
1 GATGCATCGATGCACAGCCTT
***
3200409 GATGCATCGATGCACAG-AAG
1 GATGCATCGATGCACAGCCTT
*
3200429 GATGCATCGATGCACAACCTT
1 GATGCATCGATGCACAGCCTT
3200450 GATGCATCGAT
1 GATGCATCGAT
3200461 AAACTAATTG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
20 33 0.42
21 45 0.58
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (21 bp):
GATGCATCGATGCACAGCCTT
Found at i:3200517 original size:20 final size:19
Alignment explanation
Indices: 3200492--3200546 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
3200482 TGAGTGCATG
3200492 GATGCACTGCATGGTTCATC
1 GATGCACTGCA-GGTTCATC
*
3200512 GATGCACTAGTGCAGGTTCATG
1 GATGCAC---TGCAGGTTCATC
3200534 GATGCACTGCAGG
1 GATGCACTGCAGG
3200547 GGTGCATGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.19
20 7 0.23
22 14 0.45
23 4 0.13
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (19 bp):
GATGCACTGCAGGTTCATC
Found at i:3200532 original size:22 final size:23
Alignment explanation
Indices: 3200499--3200541 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
3200489 ATGGATGCAC
3200499 TGCATGGTTCATCGATGCACTAG
1 TGCATGGTTCATCGATGCACTAG
*
3200522 TGCA-GGTTCATGGATGCACT
1 TGCATGGTTCATCGATGCACT
3200542 GCAGGGGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
TGCATGGTTCATCGATGCACTAG
Found at i:3200663 original size:29 final size:29
Alignment explanation
Indices: 3200631--3200698 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
3200621 AAAACCTTTT
3200631 AAAACTTTGAATAAATTCAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
*
3200661 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
*
3200691 AAACCTTT
1 AAAACTTT
3200699 TTGCCTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 14 0.42
30 14 0.42
31 5 0.15
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:3203453 original size:20 final size:20
Alignment explanation
Indices: 3203428--3203479 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
3203418 GCCTTGAATG
3203428 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
3203448 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
3203468 TGCATCGATGCA
1 TGCATCGATGCA
3203480 TCCGTCGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAAGGCCA
Found at i:3206845 original size:25 final size:27
Alignment explanation
Indices: 3206783--3206862 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 27
3206773 ATTTTGATAC
3206783 ATGACATGAATGCATTTCATATTATGATA
1 ATGACATGAATGCATTTCATATTATG--A
3206812 CATGACATGAATGCATTTCATATTATG-
1 -ATGACATGAATGCATTTCATATTATGA
*
3206839 AT-ACATGACATG-AATTCATATTAT
1 ATGACATGA-ATGCATTTCATATTAT
3206863 ATGCATTAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
25 17 0.35
26 5 0.10
30 26 0.54
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
ATGACATGAATGCATTTCATATTATGA
Found at i:3206850 original size:35 final size:30
Alignment explanation
Indices: 3206771--3206853 Score: 157
Period size: 30 Copynumber: 2.8 Consensus size: 30
3206761 TCTAGATTCA
*
3206771 ATATTTTGATACATGACATGAATGCATTTC
1 ATATTATGATACATGACATGAATGCATTTC
3206801 ATATTATGATACATGACATGAATGCATTTC
1 ATATTATGATACATGACATGAATGCATTTC
3206831 ATATTATGATACATGACATGAAT
1 ATATTATGATACATGACATGAAT
3206854 TCATATTATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (30 bp):
ATATTATGATACATGACATGAATGCATTTC
Found at i:3207227 original size:23 final size:23
Alignment explanation
Indices: 3207201--3207247 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
3207191 ACTACAGTGT
3207201 AATTCTACGCGGCACTTCGGTGC
1 AATTCTACGCGGCACTTCGGTGC
*
3207224 AATTCTACGTGGCACTTCGGTGC
1 AATTCTACGCGGCACTTCGGTGC
3207247 A
1 A
3207248 TTTATATGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
AATTCTACGCGGCACTTCGGTGC
Found at i:3208486 original size:65 final size:62
Alignment explanation
Indices: 3208308--3208515 Score: 179
Period size: 65 Copynumber: 3.2 Consensus size: 62
3208298 TTTCAAAGTG
* **
3208308 ATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTG-AACATCAAATGCATTT
1 ATGCATCGATGCACCAA-CCATGCATCGATGCACC-TGG--TATTTTGAAACATCAAATGCATTT
3208372 C
62 C
* * **
3208373 ATGCATCGATGCA-CATACTATGCATCGATGTACGAAGAGT-TTTATGAAAACATCAAATGCATT
1 ATGCATCGATGCACCA-ACCATGCATCGATGCAC-CTG-GTATTT-TG-AAACATCAAATGCATT
*
3208436 TG
61 TC
* ** *
3208438 ATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATTGAATGTATTTC
1 ATGCATCGATGCACCAACCATGCATCGATGCAC-CTGG-TATTTTGAAACATCAAATGCATTTC
*
3208502 ATCCATCGATGCAC
1 ATGCATCGATGCAC
3208516 TAAGGGTCCA
Statistics
Matches: 115, Mismatches: 19, Indels: 19
0.75 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 45 0.39
65 61 0.53
66 5 0.04
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (62 bp):
ATGCATCGATGCACCAACCATGCATCGATGCACCTGGTATTTTGAAACATCAAATGCATTTC
Found at i:3210267 original size:91 final size:92
Alignment explanation
Indices: 3210085--3210303 Score: 287
Period size: 91 Copynumber: 2.4 Consensus size: 92
3210075 GGACCCTCAC
* * * * * *
3210085 AAATTTGTGACAGGTCCACATGTTACGTAACAAAATTTAGAGTTTTTTTTTAATTATCCACTCAT
1 AAATTTGTGACGGGTCCACTTGTTCCGTCACAAAAATTAGAG--TTTTTTTAATTACCCACTCAT
* *
3210150 TACCTCCAATTTTCTTCAATTGAAACATA
64 TACCTCCAATTTCCATCAATTGAAACATA
* * *
3210179 AAATTTATGACGGGTCCACTTGTTCCGTCACAAAAATTAGAG-TTTTTTAATTACCCGCTCATTT
1 AAATTTGTGACGGGTCCACTTGTTCCGTCACAAAAATTAGAGTTTTTTTAATTACCCACTCATTA
* *
3210243 CCTCTAATTTCCATCCATTGAAACATA
66 CCTCCAATTTCCATCAATTGAAACATA
*
3210270 AAATTTGTGACGGGTCTACTTGTTCCGTCACAAA
1 AAATTTGTGACGGGTCCACTTGTTCCGTCACAAA
3210304 TTTGTGACGG
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
91 74 0.67
94 36 0.33
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (92 bp):
AAATTTGTGACGGGTCCACTTGTTCCGTCACAAAAATTAGAGTTTTTTTAATTACCCACTCATTA
CCTCCAATTTCCATCAATTGAAACATA
Found at i:3210336 original size:31 final size:32
Alignment explanation
Indices: 3210269--3210337 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
3210259 ATTGAAACAT
* * *
3210269 AAAATTTGTGACGGGTCTACTTGTTCCGTCAC
1 AAAATTTGTGACGGATCCACATGTTCCGTCAC
3210301 -AAATTTGTGACGGATCCACATGTTCC-TCAC
1 AAAATTTGTGACGGATCCACATGTTCCGTCAC
3210331 AAAATTT
1 AAAATTT
3210338 AGAGTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (32 bp):
AAAATTTGTGACGGATCCACATGTTCCGTCAC
Found at i:3210396 original size:122 final size:122
Alignment explanation
Indices: 3210179--3210401 Score: 351
Period size: 122 Copynumber: 1.8 Consensus size: 122
3210169 TTGAAACATA
* *
3210179 AAATTTATGACGGGTCCACTTGTTCCGTCACAAAAATTAGAGTTTTTTAATTACCCGCTCATTTC
1 AAATTTATGACGGATCCACATGTTCCGTCACAAAAATTAGAGTTTTTTAATTACCCGCTCATTTC
3210244 CTCTAATTTCCATCCATTGAAACATAAAATTTGTGACGGGTCTACTTGTTCCGTCAC
66 CTCTAATTTCCATCCATTGAAACATAAAATTTGTGACGGGTCTACTTGTTCCGTCAC
* * * *
3210301 AAATTTGTGACGGATCCACATGTTCC-TCACAAAATTTAGAGTTTTTTTAATTACCCGTTCGTTT
1 AAATTTATGACGGATCCACATGTTCCGTCACAAAAATTAGAG-TTTTTTAATTACCCGCTCATTT
*
3210365 CCT-TCAATTTCCCTCCATTGAAACATAAAATTTGTGA
65 CCTCT-AATTTCCATCCATTGAAACATAAAATTTGTGA
3210402 TAGGTTCGCA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
121 15 0.16
122 77 0.84
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (122 bp):
AAATTTATGACGGATCCACATGTTCCGTCACAAAAATTAGAGTTTTTTAATTACCCGCTCATTTC
CTCTAATTTCCATCCATTGAAACATAAAATTTGTGACGGGTCTACTTGTTCCGTCAC
Found at i:3210416 original size:122 final size:122
Alignment explanation
Indices: 3210179--3210430 Score: 339
Period size: 122 Copynumber: 2.1 Consensus size: 122
3210169 TTGAAACATA
* *
3210179 AAATTTATGACGGGTCCACTTGTTCCGTCACAAAAATTAGAGTTTTTTAATTACCCGCTCATTTC
1 AAATTTATGACGGATCCACATGTTCCGTCACAAAAATTAGAGTTTTTTAATTACCCGCTCATTTC
* *
3210244 CTCTAATTTCCATCCATTGAAACATAAAATTTGTGACGGGTCTACTTGTTCCGTCAC
66 CTCTAATTTCCATCCATTGAAACATAAAATTTGTGAAGGGTCTACATGTTCCGTCAC
* * * *
3210301 AAATTTGTGACGGATCCACATGTTCC-TCACAAAATTTAGAGTTTTTTTAATTACCCGTTCGTTT
1 AAATTTATGACGGATCCACATGTTCCGTCACAAAAATTAGAG-TTTTTTAATTACCCGCTCATTT
* * * *
3210365 CCT-TCAATTTCCCTCCATTGAAACATAAAATTTGTGATAGGTTC-GCATGTTCCGTCATA
65 CCTCT-AATTTCCATCCATTGAAACATAAAATTTGTGA-AGGGTCTACATGTTCCGTCA-C
3210424 AAATTTA
1 AAATTTA
3210431 GAGGTTTTTT
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
121 15 0.13
122 88 0.78
123 10 0.09
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (122 bp):
AAATTTATGACGGATCCACATGTTCCGTCACAAAAATTAGAGTTTTTTAATTACCCGCTCATTTC
CTCTAATTTCCATCCATTGAAACATAAAATTTGTGAAGGGTCTACATGTTCCGTCAC
Found at i:3210458 original size:92 final size:91
Alignment explanation
Indices: 3210319--3210489 Score: 261
Period size: 92 Copynumber: 1.9 Consensus size: 91
3210309 GACGGATCCA
* ** * * *
3210319 CATGTTCCTCACAAAATTTAGAGTTTTTTTAATTACCCGTTCGTTTCCTTCAATTTCCCTCCATT
1 CATGTTCCTCACAAAATTTAGAGGTTTTTTAATTACCCACTCATTTCCTCCAATTCCCCTCCATT
3210384 GAAACATAAAATTTGTGATAGGTTCG
66 GAAACATAAAATTTGTGATAGGTTCG
* *
3210410 CATGTTCCGTCATAAAATTTAGAGGTTTTTTACTTACCCACTCATTTCCTCCAATTCCCCTCCAT
1 CATGTTCC-TCACAAAATTTAGAGGTTTTTTAATTACCCACTCATTTCCTCCAATTCCCCTCCAT
3210475 TGAAACATAAAATTT
65 TGAAACATAAAATTT
3210490 TAAACATACC
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 8 0.11
92 63 0.89
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.39
Consensus pattern (91 bp):
CATGTTCCTCACAAAATTTAGAGGTTTTTTAATTACCCACTCATTTCCTCCAATTCCCCTCCATT
GAAACATAAAATTTGTGATAGGTTCG
Found at i:3210936 original size:16 final size:16
Alignment explanation
Indices: 3210913--3210952 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
3210903 TTTTTATGTG
**
3210913 ATATTTTTTTAAAAAA
1 ATATTTTTAGAAAAAA
3210929 ATCATTTTTAGAAAAAA
1 AT-ATTTTTAGAAAAAA
3210946 ATATTTT
1 ATATTTT
3210953 AAATTTCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATTTTTAGAAAAAA
Found at i:3211142 original size:123 final size:123
Alignment explanation
Indices: 3210923--3211147 Score: 306
Period size: 123 Copynumber: 1.8 Consensus size: 123
3210913 ATATTTTTTT
* * *
3210923 AAAAAAATCATTTTTAGAAAAAAATATTTTAAATTTCTGATGGAATTTATGGACCCGTAACAAAT
1 AAAAAAATCATTTTTAGAAAAAAATATTTTAAATTTCTGACGAAATTTATGAACCCGTAACAAAT
* *
3210988 TTCTGACTTACCCACCTATTCCGTCACAAATTTGTGATGGGCCCACATGTTTCGTCAC
66 TTCTGACTGACCCACCTATTCCATCACAAATTTGTGATGGGCCCACATGTTTCGTCAC
*** * * * *
3211046 AAAAAAATCATTTTTTTTAAAAAATATTTTAAATTTGTGACGAAATTTGTGAATCCGTCACAAAT
1 AAAAAAATCATTTTTAGAAAAAAATATTTTAAATTTCTGACGAAATTTATGAACCCGTAACAAAT
* * * *
3211111 TTTTGACTGATCCACTTATTCCATCATAAATTTGTGA
66 TTCTGACTGACCCACCTATTCCATCACAAATTTGTGA
3211148 AGAGTCTACA
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
123 86 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (123 bp):
AAAAAAATCATTTTTAGAAAAAAATATTTTAAATTTCTGACGAAATTTATGAACCCGTAACAAAT
TTCTGACTGACCCACCTATTCCATCACAAATTTGTGATGGGCCCACATGTTTCGTCAC
Found at i:3211880 original size:32 final size:32
Alignment explanation
Indices: 3211814--3211876 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
3211804 TAATTAATTA
* *
3211814 AATAAAATTTTGGATTCATAATATTTTAGAGG
1 AATAAAATATTGGATTAATAATATTTTAGAGG
*
3211846 AATAAAA-ATTGGATTAATAATATTTTGGAGG
1 AATAAAATATTGGATTAATAATATTTTAGAGG
3211877 GAATGACAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (32 bp):
AATAAAATATTGGATTAATAATATTTTAGAGG
Found at i:3214035 original size:37 final size:36
Alignment explanation
Indices: 3213976--3214095 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
3213966 ATCCCATTAT
* *
3213976 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
3214011 CTATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
3214048 CA-TTTTCAAAGAAACATTTACTAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
3214083 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
3214096 TTGGTTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 34 0.45
36 8 0.11
37 34 0.45
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:3218592 original size:37 final size:37
Alignment explanation
Indices: 3218534--3218652 Score: 165
Period size: 37 Copynumber: 3.3 Consensus size: 37
3218524 TCCCATTATC
* *
3218534 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAAAT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAAT
**
3218570 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAAT
3218606 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAAACAT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA-AT
3218643 -TTTTTCAAAG
1 ATTTTTCAAAG
3218653 TTGGTTACCA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
35 28 0.38
36 16 0.22
37 29 0.40
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAAT
Found at i:3218608 original size:21 final size:20
Alignment explanation
Indices: 3218581--3218644 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
3218571 TTTTTCAAAG
3218581 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
3218601 AAACCATTT-TCAAA----G-
1 AAA-CATTTACCAAACTTTGA
3218616 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTG-A
3218637 AAACATTT
1 AAACATTT
3218645 TTTCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
19 1 0.03
20 7 0.21
21 13 0.38
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:3218618 original size:35 final size:35
Alignment explanation
Indices: 3218536--3218645 Score: 159
Period size: 35 Copynumber: 3.1 Consensus size: 35
3218526 CCATTATCAT
* * *
3218536 TTTTC-AACAAACATCTACCAAACTTTGAAAAAATA
1 TTTTCAAAGAAACATTTACCAAACTTTG-AAAAACA
*
3218571 TTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 -TTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
3218607 TTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
3218642 TTTT
1 TTTT
3218646 TTCAAAGTTG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 38 0.56
36 10 0.15
37 20 0.29
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (35 bp):
TTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
Found at i:3219299 original size:21 final size:21
Alignment explanation
Indices: 3219261--3219301 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3219251 TCCGAGTTAC
* *
3219261 CCGCGACGGCCGCGATAGCGT
1 CCGCGACGACCGCAATAGCGT
*
3219282 CCGCGACGACCGTAATAGCG
1 CCGCGACGACCGCAATAGCG
3219302 CCCAGCAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.37, G:0.34, T:0.10
Consensus pattern (21 bp):
CCGCGACGACCGCAATAGCGT
Found at i:3225653 original size:28 final size:28
Alignment explanation
Indices: 3225613--3225668 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3225603 ATGATATTTC
* **
3225613 GTATAAATATATATTATGGTAATAATTG
1 GTATAAAAATATAACATGGTAATAATTG
*
3225641 GTATAAAAATATAACATGGTAATGATTG
1 GTATAAAAATATAACATGGTAATAATTG
3225669 TTAGAACCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.38
Consensus pattern (28 bp):
GTATAAAAATATAACATGGTAATAATTG
Found at i:3226733 original size:15 final size:17
Alignment explanation
Indices: 3226713--3226744 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3226703 ATGGATTTCC
3226713 TTAA-TTTGTAT-ATCA
1 TTAATTTTGTATCATCA
3226728 TTAATTTTGTATCATCA
1 TTAATTTTGTATCATCA
3226745 GACAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.53
Consensus pattern (17 bp):
TTAATTTTGTATCATCA
Found at i:3227104 original size:21 final size:20
Alignment explanation
Indices: 3227052--3227105 Score: 99
Period size: 20 Copynumber: 2.6 Consensus size: 20
3227042 ATAAGCCCTC
3227052 AAACTTTATTATTTTGTATA
1 AAACTTTATTATTTTGTATA
3227072 AAACTTTATTATTTTGTATA
1 AAACTTTATTATTTTGTATA
3227092 AAACTTATATTATT
1 AAACTT-TATTATT
3227106 CTTACATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 26 0.79
21 7 0.21
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (20 bp):
AAACTTTATTATTTTGTATA
Found at i:3231852 original size:17 final size:17
Alignment explanation
Indices: 3231830--3231882 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
3231820 AATTAAGATT
3231830 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* * *
3231847 TAGTTTGATGAATGAGC
1 TAGTTTAATAAATGAAC
*
3231864 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
3231881 TA
1 TA
3231883 ACTTTATTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:3234643 original size:19 final size:20
Alignment explanation
Indices: 3234621--3234668 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
3234611 AATGATTTTC
*
3234621 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
3234640 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
3234660 TTTTGAAAA
1 TTTTGAAAA
3234669 ATGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:3235360 original size:20 final size:20
Alignment explanation
Indices: 3235337--3235374 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3235327 ATATGTACTT
*
3235337 AATTTTAACAATTGGTATCA
1 AATTTAAACAATTGGTATCA
3235357 AATTTAAACAATTGGTAT
1 AATTTAAACAATTGGTAT
3235375 TTTAGACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AATTTAAACAATTGGTATCA
Found at i:3235980 original size:21 final size:21
Alignment explanation
Indices: 3235953--3236006 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
3235943 TGTCAAAGTG
*
3235953 CATCCATGCACCCCTGTAGTA
1 CATCCATGCACCCCTGCAGTA
* *
3235974 TATCCATGCACCCCTGCAGTG
1 CATCCATGCACCCCTGCAGTA
3235995 CATCCATGCACC
1 CATCCATGCACC
3236007 TGCCACTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (21 bp):
CATCCATGCACCCCTGCAGTA
Found at i:3238612 original size:14 final size:14
Alignment explanation
Indices: 3238595--3238623 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3238585 CTAAATGCAT
3238595 GGTACTAAGCAGTA
1 GGTACTAAGCAGTA
3238609 GGTACTAAGCAGTA
1 GGTACTAAGCAGTA
3238623 G
1 G
3238624 ATACATGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (14 bp):
GGTACTAAGCAGTA
Found at i:3242815 original size:26 final size:25
Alignment explanation
Indices: 3242759--3242866 Score: 62
Period size: 26 Copynumber: 4.2 Consensus size: 25
3242749 AATTATCACA
* * *
3242759 TAATTCCACTAGTGAAATTTAACAT
1 TAATTTCACCAGTGAAAGTTAACAT
*
3242784 GT-ATTTACACCGGTGAAA-TTAACACT
1 -TAATTT-CACCAGTGAAAGTTAACA-T
**
3242810 TAATTTCAAAAGTGAAAGTTAACA-
1 TAATTTCACCAGTGAAAGTTAACAT
* *
3242834 TAGACTTGCACCAGCGAAA-TTAACACT
1 TA-A-TTTCACCAGTGAAAGTTAACA-T
3242861 TAATTT
1 TAATTT
3242867 TAGTAATGAA
Statistics
Matches: 63, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
24 2 0.03
25 27 0.43
26 32 0.51
27 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (25 bp):
TAATTTCACCAGTGAAAGTTAACAT
Found at i:3242955 original size:50 final size:51
Alignment explanation
Indices: 3242748--3243174 Score: 338
Period size: 50 Copynumber: 8.4 Consensus size: 51
3242738 TTCAATACTA
* * * * * *
3242748 AAATTATCACATAATTCC-ACTAGTGAAATTTAACAT-GTATTTACACCGGTG
1 AAATTAACACTTAATTCCAAATAGT-AAACTTAACATAG-ACTTACACCAGTG
* * * *
3242799 AAATTAACACTTAATTTCAAA-AGTGAAAGTTAACATAGACTTGCACCAGCG
1 AAATTAACACTTAATTCCAAATAGT-AAACTTAACATAGACTTACACCAGTG
** * *
3242850 AAATTAACACTTAATTTTAGTAAT-G-AAACTTAACATAAACTTACACAACG-G
1 AAATTAACACTTAATTCCA--AATAGTAAACTTAACATAGACTTACACCA-GTG
* * * *
3242901 AAATTAACACTTAATTCCAACT-GTAAAGTTAACATAGACTTACACTAGTA
1 AAATTAACACTTAATTCCAAATAGTAAACTTAACATAGACTTACACCAGTG
* * * *
3242951 AAATTAACACTTAATTTCAAATAATGAAACTTAACATAGACTTTCACTAGTG
1 AAATTAACACTTAATTCCAAATAGT-AAACTTAACATAGACTTACACCAGTG
* * * *
3243003 AAACTAACAATTAATTCC-AACAG-AGAACTTAACATAGACTTACACCAATG
1 AAATTAACACTTAATTCCAAATAGTA-AACTTAACATAGACTTACACCAGTG
* * * * * *
3243053 AAATTAACAATTAGTTTTTC-AATAGCGAAACTTAACATAGACTTACACTACTG
1 AAATTAACACTTA--ATTCCAAATAG-TAAACTTAACATAGACTTACACCAGTG
* * *
3243106 AAATTAACACTTAATTCC-AATATTGAACTTAACATAGATTTACA-CAGGTG
1 AAATTAACACTTAATTCCAAATAGTAAACTTAACATAGACTTACACCA-GTG
*
3243156 AAATTAACAATTAATTCCA
1 AAATTAACACTTAATTCCA
3243175 GCACTGAAAC
Statistics
Matches: 308, Mismatches: 51, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
49 6 0.02
50 111 0.36
51 104 0.34
52 48 0.16
53 38 0.12
54 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (51 bp):
AAATTAACACTTAATTCCAAATAGTAAACTTAACATAGACTTACACCAGTG
Found at i:3242976 original size:102 final size:101
Alignment explanation
Indices: 3242798--3243190 Score: 423
Period size: 102 Copynumber: 3.9 Consensus size: 101
3242788 TTACACCGGT
* * * * * *
3242798 GAAATTAACACTTAATTTCAAAAGTGAAAGTTAACATAGACTTGCACCAGCGAAATTAACACTTA
1 GAAATTAACACTTAATTCCAACAGT-AAACTTAACATAGACTTACACCAGTGAAATTAACAATTA
* * * *
3242863 ATTTTAGTAATGAAACTTAACATAAACTTACACAACG
65 ATTTCAATAATGAAACTTAACATAGACTTACACTACG
* * * * *
3242900 GAAATTAACACTTAATTCCAACTGTAAAGTTAACATAGACTTACACTAGTAAAATTAACACTTAA
1 GAAATTAACACTTAATTCCAACAGTAAACTTAACATAGACTTACACCAGTGAAATTAACAATTAA
*
3242965 TTTCAAATAATGAAACTTAACATAGACTTTCACTA-G
66 TTTC-AATAATGAAACTTAACATAGACTTACACTACG
* * *
3243001 TGAAACTAACAATTAATTCCAACAG-AGAACTTAACATAGACTTACACCAATGAAATTAACAATT
1 -GAAATTAACACTTAATTCCAACAGTA-AACTTAACATAGACTTACACCAGTGAAATTAACAATT
* ** *
3243065 AGTTTTTCAATAGCGAAACTTAACATAGACTTACACTACT
64 A--ATTTCAATAATGAAACTTAACATAGACTTACACTACG
* * * *
3243105 GAAATTAACACTTAATTCCAATATTGAACTTAACATAGATTTACA-CAGGTGAAATTAACAATTA
1 GAAATTAACACTTAATTCCAACAGTAAACTTAACATAGACTTACACCA-GTGAAATTAACAATTA
* ** *
3243169 ATTCCAGCACTGAAACTTAACA
65 ATTTCAATAATGAAACTTAACA
3243191 CATAAGTCCA
Statistics
Matches: 245, Mismatches: 38, Indels: 17
0.82 0.13 0.06
Matches are distributed among these distances:
101 57 0.23
102 104 0.42
103 80 0.33
104 4 0.02
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.29
Consensus pattern (101 bp):
GAAATTAACACTTAATTCCAACAGTAAACTTAACATAGACTTACACCAGTGAAATTAACAATTAA
TTTCAATAATGAAACTTAACATAGACTTACACTACG
Found at i:3243114 original size:25 final size:26
Alignment explanation
Indices: 3242873--3243114 Score: 84
Period size: 25 Copynumber: 9.5 Consensus size: 26
3242863 ATTTTAGTAA
* *
3242873 TGAAACTTAACATAAACTTACACAAC
1 TGAAACTTAACATAGACTTACACTAC
* *
3242899 GGAAA-TTAACACTTA-A-TT-C-CAAC
1 TGAAACTTAACA--TAGACTTACACTAC
* *
3242922 TGTAAAGTTAACATAGACTTACACTAG
1 TG-AAACTTAACATAGACTTACACTAC
* * * *
3242949 T-AAAATTAACACTTA-A-TTTCAAATAA
1 TGAAACTTAACA--TAGACTTAC-ACTAC
* *
3242975 TGAAACTTAACATAGACTTTCACTAG
1 TGAAACTTAACATAGACTTACACTAC
*
3243001 TGAAAC-TAACAATTA-A-TT-C-CAAC
1 TGAAACTTAAC-A-TAGACTTACACTAC
* * *
3243024 AGAGAACTTAACATAGACTTACACCAA
1 TGA-AACTTAACATAGACTTACACTAC
** * *
3243051 TGAAA-TTAACAATTAGTTTTTCAATAGC
1 TGAAACTTAAC-A-TAGACTTACACTA-C
3243079 -GAAACTTAACATAGACTTACACTAC
1 TGAAACTTAACATAGACTTACACTAC
3243104 TGAAA-TTAACA
1 TGAAACTTAACA
3243115 CTTAATTCCA
Statistics
Matches: 162, Mismatches: 27, Indels: 55
0.66 0.11 0.23
Matches are distributed among these distances:
23 13 0.08
24 11 0.07
25 54 0.33
26 40 0.25
27 39 0.24
28 5 0.03
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.28
Consensus pattern (26 bp):
TGAAACTTAACATAGACTTACACTAC
Found at i:3245637 original size:159 final size:157
Alignment explanation
Indices: 3245390--3246242 Score: 1023
Period size: 159 Copynumber: 5.4 Consensus size: 157
3245380 TTAGTCCATG
* * * *
3245390 ATTTCATTATTCCTTCAATTCATCCTTTATTTTAAGTCCGTTTTTAGCAAATTTGAACCACATGC
1 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGC
** * * *
3245455 TGGTAAACTATC-GTAGAATACATATGTACTTTCAATTCCTCTTTTGAGAACAAATTTTCTATTT
66 TCCTAAACCATCAGTAGAATACATATGTACTTTCAATTCCTCTTTTAATAACAAATTTTCTATTT
*
3245519 TTCAATTTAGTCCCTCAATTTTTTATC
131 TTCAATTTAGTCCCTCAATTTTTTATA
* **
3245546 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTGTTTTTTTTACCAAATTTAAAGTACA
1 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTG---TTTTTACCAAATTTGAACCACA
* * *
3245611 TGCTTCTAAACCA-CAGTAGAACACATATGTACTTTCAATTCCTCTTTTTAATAAAAAATTTTCT
63 TGCTCCTAAACCATCAGTAGAATACATATGTACTTTCAATTCCTC-TTTTAATAACAAATTTTCT
* *
3245675 A-TTTTCGATTTAGTCCATCAATTTTTTTATA
127 ATTTTTCAATTTAGTCCCTCAA-TTTTTTATA
* *
3245706 ATTTCCTTATTTTTTTCAATTCATCCTTTATTTTAAATCTGTTTTTACCAAATTTGAACCACATG
1 ATTTCCTTA-TTTCTTCAATTCATCCTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATG
* * * *
3245771 CTCTTAAACCAGT-A-TAGAATACATATGTTCTTTCAATTCCTTTTTTTTATAACAAATTTTCTA
65 CTCCTAAACCA-TCAGTAGAATACATATGTACTTTCAATTCC-TCTTTTAATAACAAATTTTCTA
*
3245834 TTTTTCAATTTAGTTCCTCAA-TTTTTATA
128 TTTTTCAATTTAGTCCCTCAATTTTTTATA
* * ** * *
3245863 ATTTCTTTATTTCTTCAATTCATCCTTTATTTTAAGTTTGTTTTTTATGAAATCTGAACTACATG
1 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTG-TTTTTACCAAATTTGAACCACATG
* * * * **
3245928 CTCCTAAACCAT-TGT-GAAATACATATGTACTTTCAAAACTT-CTTTTTTGATAAAAAAAAGTT
65 CTCCTAAACCATCAGTAG-AATACATATGTACTTTC--AA-TTCCTCTTTTAAT-AACAAATTTT
*
3245990 CTATTTTTCAATTTAGTCTCTC-ATTTTTTATA
125 CTATTTTTCAATTTAGTCCCTCAATTTTTTATA
*
3246022 ATTTCCTTATTTCTCCAATTCATCAC-TTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATG
1 ATTTCCTTATTTCTTCAATTCATC-CTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATG
* * *
3246086 ATCCTAAACCATCA-AAGAATACATATGTACTTTCAATTCCTCTTTTTAATAAC-AATTTTTTAT
65 CTCCTAAACCATCAGTAGAATACATATGTACTTTCAATTCCTC-TTTTAATAACAAATTTTCTAT
* * *
3246149 TTTTCAAATTAGTCCCTCGATTTTTCATA
129 TTTTCAATTTAGTCCCTCAATTTTTTATA
* * * *
3246178 ATTTCTTTATTTCTTAAATTCATCC-TTATTTTAATTCCGTTTTTACCAAATTTGAACCACATGC
1 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGC
3246242 T
66 T
3246243 TATATACAAC
Statistics
Matches: 598, Mismatches: 74, Indels: 51
0.83 0.10 0.07
Matches are distributed among these distances:
155 63 0.11
156 103 0.17
157 69 0.12
158 130 0.22
159 167 0.28
160 37 0.06
161 29 0.05
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (157 bp):
ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGC
TCCTAAACCATCAGTAGAATACATATGTACTTTCAATTCCTCTTTTAATAACAAATTTTCTATTT
TTCAATTTAGTCCCTCAATTTTTTATA
Found at i:3246096 original size:315 final size:316
Alignment explanation
Indices: 3245390--3246211 Score: 1081
Period size: 315 Copynumber: 2.6 Consensus size: 316
3245380 TTAGTCCATG
* * * *
3245390 ATTTCATTATTCCTTCAATTCATCCTTTATTTTAAGTCCGTTTTTAGCAAATTTGAACCACATGC
1 ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGC
** * * * * *
3245455 TGGTAAACTATCGTAGAATACATATGTACTTTCAATTCC-TCTTTTGAGAACAAATTTTCTATTT
66 TCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTTTTTTTAATAACAAATTTTCTATTT
* *
3245519 TTCAATTTAGTCCCTCAATTTTTTATCATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTC
131 TTCAATTTAGTCCCTCAA-TTTTTATAATTTCTTTATTTCTTCAATTCATCCTTTATTTTAAGTC
* * * *
3245584 TGTTTTTTTTACCAAATTTAAAGTACATGCTTCTAAACCACAGTAGAACACATATGTACTTTCAA
195 TGTGTTTTTTACCAAATCTAAACTACATGCTCCTAAACCACAGTAGAACACATATGTACTTTCAA
** ** *
3245649 TTCCTCTTTTTAATAAAAAATTTTCTATTTTCGATTTAGTCCATCAATTTTTTTATA
260 AACCTCTTTTTAATAAAAAAAGTTCTATTTTCAATTTAGTCCATCAATTTTTTTATA
* *
3245706 ATTTCCTTATTTTTTTCAATTCATCCTTTATTTTAAATCTGTTTTTACCAAATTTGAACCACATG
1 ATTTCCTTA-TTTCTTCAATTCATCCTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATG
* * *
3245771 CTCTTAAACCAGT-ATAGAATACATATGTTCTTTCAATTCCTTTTTTTTATAACAAATTTTCTAT
65 CTCCTAAACCA-TCATAGAATACATATGTACTTTCAATTCCTTTTTTTAATAACAAATTTTCTAT
*
3245835 TTTTCAATTTAGTTCCTCAATTTTTATAATTTCTTTATTTCTTCAATTCATCCTTTATTTTAAGT
129 TTTTCAATTTAGTCCCTCAATTTTTATAATTTCTTTATTTCTTCAATTCATCCTTTATTTTAAGT
** * ** *
3245900 -T-TGTTTTTTATGAAATCTGAACTACATGCTCCTAAACCATTGT-GAAATACATATGTACTTTC
194 CTGTGTTTTTTACCAAATCTAAACTACATGCTCCTAAACCACAGTAG-AACACATATGTACTTTC
* *
3245962 AAAACTTCTTTTTTGATAAAAAAAAGTTCTATTTTTCAATTTAGTCTC-TC-A-TTTTTTATA
258 AAAACCTC-TTTTTAAT-AAAAAAAGTTCTA-TTTTCAATTTAGTC-CATCAATTTTTTTATA
*
3246022 ATTTCCTTATTTCTCCAATTCATCAC-TTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATG
1 ATTTCCTTATTTCTTCAATTCATC-CTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATG
* * * *
3246086 ATCCTAAACCATCAAAGAATACATATGTACTTTCAATTCCTCTTTTTAATAAC-AATTTTTTATT
65 CTCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTTTTTTTAATAACAAATTTTCTATT
* * *
3246150 TTTCAAATTAGTCCCTCGATTTTTCATAATTTCTTTATTTCTTAAATTCATCC-TTATTTTAA
130 TTTCAATTTAGTCCCTCAATTTTT-ATAATTTCTTTATTTCTTCAATTCATCCTTTATTTTAA
3246212 TTCCGTTTTT
Statistics
Matches: 447, Mismatches: 48, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
314 42 0.09
315 176 0.39
316 35 0.08
317 138 0.31
318 55 0.12
319 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.48
Consensus pattern (316 bp):
ATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTGTTTTTACCAAATTTGAACCACATGC
TCCTAAACCATCATAGAATACATATGTACTTTCAATTCCTTTTTTTAATAACAAATTTTCTATTT
TTCAATTTAGTCCCTCAATTTTTATAATTTCTTTATTTCTTCAATTCATCCTTTATTTTAAGTCT
GTGTTTTTTACCAAATCTAAACTACATGCTCCTAAACCACAGTAGAACACATATGTACTTTCAAA
ACCTCTTTTTAATAAAAAAAGTTCTATTTTCAATTTAGTCCATCAATTTTTTTATA
Done.