Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008165.1 Hibiscus syriacus cultivar Beakdansim tig00110745_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: 2894944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:2138459 original size:14 final size:14
Alignment explanation
Indices: 2138440--2138528 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
2138430 GGAAATGACT
2138440 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2138454 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
2138473 ATTGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2138487 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
2138506 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
2138520 ATCGCAACG
1 ATCGCAACG
2138529 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 28 0.47
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:2138480 original size:33 final size:33
Alignment explanation
Indices: 2138391--2138545 Score: 220
Period size: 33 Copynumber: 4.5 Consensus size: 33
2138381 TCTTTTGGTT
2138391 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
2138430 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
2138464 GAAATGAAAATTGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2138497 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2138530 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2138546 TGCGATTTTG
Statistics
Matches: 109, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
33 78 0.72
34 11 0.10
36 1 0.01
37 1 0.01
38 3 0.03
40 15 0.14
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2138594 original size:33 final size:33
Alignment explanation
Indices: 2138546--2138638 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
2138536 AAAATCGCAA
**
2138546 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
2138579 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
**
2138612 TGCGATAGTCATTTCCGCGTTGCGATT
1 TGCGATTTTCATTT-CGCGTTGCGATT
2138639 TTCATTCTCG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 42 0.78
34 12 0.22
ACGTcount: A:0.11, C:0.22, G:0.25, T:0.43
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:2138643 original size:20 final size:19
Alignment explanation
Indices: 2138576--2138644 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
2138566 GCGATTATCT
2138576 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2138595 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
**
2138609 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTT-CG
2138629 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
2138645 CTCGAAACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 10 0.26
16 2 0.05
17 3 0.08
19 9 0.23
20 15 0.38
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2139211 original size:20 final size:20
Alignment explanation
Indices: 2139188--2139424 Score: 158
Period size: 20 Copynumber: 11.7 Consensus size: 20
2139178 CGATAGTCAG
2139188 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
2139208 ATTCGCGTTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
2139228 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
*
2139249 AATCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
2139269 ATTCGCATTGCGAATTATGAA
1 ATTCGCATTGCGATTTACG-T
* * ** *
2139290 AATCACAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACGT
* * * * *
2139309 AAATCGCAATGCGAATTAGGAAA
1 -ATTCGCATTGCGATTTACG--T
*
2139332 ATT-GCATTGCGATAGT-CAGT
1 ATTCGCATTGCGAT-TTAC-GT
* **
2139352 A-TCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
2139372 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGT
*
2139392 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGT
2139412 ATTCGCATTGCGA
1 ATTCGCATTGCGA
2139425 ATTGGGAAAA
Statistics
Matches: 169, Mismatches: 36, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
19 1 0.01
20 114 0.67
21 50 0.30
22 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:2139235 original size:41 final size:40
Alignment explanation
Indices: 2139188--2139424 Score: 147
Period size: 41 Copynumber: 5.8 Consensus size: 40
2139178 CGATAGTCAG
* * *
2139188 ATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* *
2139228 AATTCGCATTGCGATTTACTTAATCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * * * ** * *
2139269 ATTCGCATTGCGAATTATGAAAATCACAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACG-TAATCGCATTGCGATTTACCT
* * * * * * * *
2139309 AAATCGCAATGCGAATTAGGAAAATTGCATTGCGATAGT-CAGT
1 -ATTCGCATTGCGATTTACG-TAATCGCATTGCGAT-TTAC-CT
* ** *
2139352 A-TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGTAA-TCGCATTGCGATTTACCT
* *
2139392 ATTCGCATTGCGATTTACTTATTCGCATTGCGA
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGA
2139425 ATTGGGAAAA
Statistics
Matches: 155, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
40 38 0.25
41 112 0.72
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:2155294 original size:19 final size:19
Alignment explanation
Indices: 2155272--2155315 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2155262 TTCATTAGGC
*
2155272 TATGAATCT-AAAATTAAAT
1 TATGAATATGAAAA-TAAAT
*
2155291 TATGAATATGAAAATAAGT
1 TATGAATATGAAAATAAAT
2155310 TATGAA
1 TATGAA
2155316 ATTGGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (19 bp):
TATGAATATGAAAATAAAT
Found at i:2156216 original size:10 final size:10
Alignment explanation
Indices: 2156201--2156228 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2156191 AAGTTTATTT
2156201 AATAAAACGG
1 AATAAAACGG
2156211 AATAAAACGG
1 AATAAAACGG
2156221 AATAAAAC
1 AATAAAAC
2156229 TGACAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.11, G:0.14, T:0.11
Consensus pattern (10 bp):
AATAAAACGG
Found at i:2159882 original size:20 final size:21
Alignment explanation
Indices: 2159844--2159884 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2159834 AGACACACGG
2159844 TACAAGACACTAGAGTGTATA
1 TACAAGACACTAGAGTGTATA
*
2159865 TACAAGACACT-TAGTGTATA
1 TACAAGACACTAGAGTGTATA
2159885 AGGTGGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (21 bp):
TACAAGACACTAGAGTGTATA
Found at i:2160012 original size:17 final size:15
Alignment explanation
Indices: 2159990--2160025 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
2159980 TGGAAATATT
2159990 TTATAATTATAATTATA
1 TTATAATTA-AATTA-A
2160007 TTATAATTAAATTAA
1 TTATAATTAAATTAA
2160022 TTAT
1 TTAT
2160026 GGAAATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 5 0.26
17 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAATTAAATTAA
Found at i:2164958 original size:19 final size:20
Alignment explanation
Indices: 2164922--2164959 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2164912 ATCGACATCG
2164922 ACCCTTGAGTATCAGTACCC
1 ACCCTTGAGTATCAGTACCC
*
2164942 ACCCTTG-GTATCGGTACC
1 ACCCTTGAGTATCAGTACC
2164960 AAATTTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.21, C:0.34, G:0.18, T:0.26
Consensus pattern (20 bp):
ACCCTTGAGTATCAGTACCC
Found at i:2169780 original size:21 final size:20
Alignment explanation
Indices: 2169742--2169788 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2169732 AATTAAACTT
* *
2169742 AAAAAATAAAATCCAAATAA
1 AAAAAATAAAAACAAAATAA
2169762 ATAAAAATAAAAACAAAATTAA
1 A-AAAAATAAAAACAAAA-TAA
2169784 AAAAA
1 AAAAA
2169789 GAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAAATAAAAACAAAATAA
Found at i:2178946 original size:31 final size:31
Alignment explanation
Indices: 2178911--2178973 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2178901 ACTACCCAGC
2178911 CAAAACCCTGATATTAGTCATTTATAATATT
1 CAAAACCCTGATATTAGTCATTTATAATATT
2178942 CAAAACCCTGATATTAGTCATTTATAATATT
1 CAAAACCCTGATATTAGTCATTTATAATATT
2178973 C
1 C
2178974 TTAACGAGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (31 bp):
CAAAACCCTGATATTAGTCATTTATAATATT
Found at i:2180711 original size:53 final size:53
Alignment explanation
Indices: 2180631--2180898 Score: 421
Period size: 53 Copynumber: 5.1 Consensus size: 53
2180621 CTATGTGTAC
* * * *
2180631 TTTCGACACTAAATATGCAACCATGGTATTCATAATGAGTTTGTAAATTACCA
1 TTTCAACACTATATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCA
* *
2180684 TTTCGGA-ACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTC-AACACTATATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCA
* * *
2180737 TTTCGACACTATATGTACAACCATGGCATTCATAATGAGTTTGTGAATTACCA
1 TTTCAACACTATATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCA
*
2180790 TTTCAACACTATATGTGCAACCATGGTATTCATAATAAGTTTGTGAATTACCA
1 TTTCAACACTATATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCA
*
2180843 TTTCAACACTATATGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTCAACACTATATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCA
2180896 TTT
1 TTT
2180899 TGATACTTCT
Statistics
Matches: 200, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
52 2 0.01
53 196 0.98
54 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (53 bp):
TTTCAACACTATATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCA
Found at i:2185780 original size:45 final size:44
Alignment explanation
Indices: 2185731--2185947 Score: 202
Period size: 45 Copynumber: 5.0 Consensus size: 44
2185721 TGTTACCAAT
2185731 ATAAATGAAAATGCATAATAGTGCATTATCGACATAAAAGGTGCC
1 ATAAATGAAAATGCATAA-AGTGCATTATCGACATAAAAGGTGCC
* * * * * * *
2185776 ATAAATGAAAATACATAACGGTACATTATTGGCAGAAAAAGTGCC
1 ATAAATGAAAATGCATAA-AGTGCATTATCGACATAAAAGGTGCC
*
2185821 ATAAAT-----T--A-AAA-TGCATCATCGACATAAAAGGTGCC
1 ATAAATGAAAATGCATAAAGTGCATTATCGACATAAAAGGTGCC
*
2185856 ATAAATGAAAATGCATAACGGTGCATTATCGACATAAAAGGTGCC
1 ATAAATGAAAATGCATAA-AGTGCATTATCGACATAAAAGGTGCC
* * * *
2185901 ACT-ACTGAAAATGCATAACGATGCATTATTGGCATAAAAGGTGCC
1 A-TAAATGAAAATGCATAAAG-TGCATTATCGACATAAAAGGTGCC
2185946 AT
1 AT
2185948 TTATGGTATT
Statistics
Matches: 139, Mismatches: 21, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
35 24 0.17
37 2 0.01
38 1 0.01
40 2 0.01
42 1 0.01
43 2 0.01
44 2 0.01
45 104 0.75
46 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (44 bp):
ATAAATGAAAATGCATAAAGTGCATTATCGACATAAAAGGTGCC
Found at i:2185900 original size:80 final size:80
Alignment explanation
Indices: 2185752--2185901 Score: 237
Period size: 80 Copynumber: 1.9 Consensus size: 80
2185742 TGCATAATAG
* * *
2185752 TGCATTATCGACATAAAAGGTGCCATAAATGAAAATACATAACGGTACATTATTGGCAGAAAAAG
1 TGCATCATCGACATAAAAGGTGCCATAAATGAAAATACATAACGGTACATTATCGACAGAAAAAG
2185817 TGCCATAAATTAAAA
66 TGCCATAAATTAAAA
* * * *
2185832 TGCATCATCGACATAAAAGGTGCCATAAATGAAAATGCATAACGGTGCATTATCGACATAAAAGG
1 TGCATCATCGACATAAAAGGTGCCATAAATGAAAATACATAACGGTACATTATCGACAGAAAAAG
2185897 TGCCA
66 TGCCA
2185902 CTACTGAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (80 bp):
TGCATCATCGACATAAAAGGTGCCATAAATGAAAATACATAACGGTACATTATCGACAGAAAAAG
TGCCATAAATTAAAA
Found at i:2192700 original size:45 final size:44
Alignment explanation
Indices: 2192651--2192768 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 44
2192641 TATTACCGAA
* * *
2192651 ATAAATGAAAATGCATAACAGTGCATTATCGGCATAAAAGGTTCC
1 ATAAATGAAAATGCATAA-GGTGCATTATCGGCAGAAAAGGTGCC
* * * *
2192696 ATAAATAAAAATGCATAATGGTGCATTATTGGCAGAAAATGTGGC
1 ATAAATGAAAATGCATAA-GGTGCATTATCGGCAGAAAAGGTGCC
2192741 ATAAATGAAAATGCATAAGGTGCATTAT
1 ATAAATGAAAATGCATAAGGTGCATTAT
2192769 TATCTGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
44 10 0.16
45 54 0.84
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAAGGTGCATTATCGGCAGAAAAGGTGCC
Found at i:2192778 original size:44 final size:45
Alignment explanation
Indices: 2192651--2192783 Score: 153
Period size: 45 Copynumber: 3.0 Consensus size: 45
2192641 TATTACCGAA
* * * *
2192651 ATAAATGAAAATGCATAACAGTGCATTATCGGCAT-AAAAGGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGC-TGAAAATGTGCC
* * * *
2192696 ATAAATAAAAATGCATAATGGTGCATTATTGGCAGAAAATGTGGC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCTGAAAATGTGCC
**
2192741 ATAAATGAAAATGCATAA-GGTGCATTATTATCTGAAAATGTGC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCTGAAAATGTGC
2192784 ATTATTATCT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
44 21 0.28
45 53 0.72
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (45 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCTGAAAATGTGCC
Found at i:2192785 original size:20 final size:20
Alignment explanation
Indices: 2192757--2192804 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2192747 GAAAATGCAT
2192757 AAGGTGCATTATTATCTGAA
1 AAGGTGCATTATTATCTGAA
*
2192777 AATGTGCATTATTATCTGAA
1 AAGGTGCATTATTATCTGAA
2192797 AAGGTGCA
1 AAGGTGCA
2192805 ATAAAGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
AAGGTGCATTATTATCTGAA
Found at i:2192831 original size:45 final size:44
Alignment explanation
Indices: 2192780--2193030 Score: 213
Period size: 45 Copynumber: 5.6 Consensus size: 44
2192770 ATCTGAAAAT
*
2192780 GTGCATTATTATC-TGAAAAGGTG-CAATAAAGGAAAATGCATAACG
1 GTGCATTATTA-CAT-AAAAGGTGTC-ATAAATGAAAATGCATAACG
* * * *
2192825 ATGCATTATCGACATAAAAGGTGTCGTAAATGAAAGTGCATAACG
1 GTGCATTAT-TACATAAAAGGTGTCATAAATGAAAATGCATAACG
* * * *
2192870 TTGCATTATTGGCATAAAAGGTGTCGTAAATGAAAATGCATAAAG
1 GTGCATTATT-ACATAAAAGGTGTCATAAATGAAAATGCATAACG
* * * * *
2192915 GTGCATTGTCAGAATAAAAGGTGCCATAAATGAAAATGCATAATG
1 GTGCATTATTA-CATAAAAGGTGTCATAAATGAAAATGCATAACG
** * * *
2192960 GTGCATTATCGGCATAAAAGGTGCCACT-ATTGAAATTGCATAACG
1 GTGCATTAT-TACATAAAAGGTGTCA-TAAATGAAAATGCATAACG
*
2193005 GTGCATTATTGGCA-AAAAGGTGTCAT
1 GTGCATTATT-ACATAAAAGGTGTCAT
2193031 TTATGGTATT
Statistics
Matches: 171, Mismatches: 27, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
43 1 0.01
44 10 0.06
45 156 0.91
46 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (44 bp):
GTGCATTATTACATAAAAGGTGTCATAAATGAAAATGCATAACG
Found at i:2192994 original size:90 final size:90
Alignment explanation
Indices: 2192795--2193026 Score: 263
Period size: 90 Copynumber: 2.6 Consensus size: 90
2192785 TTATTATCTG
** * * * *
2192795 AAAAGGTGCAATAAAGGAAAATGCATAACGATGCATTATCGACATAAAAGGTGTCGTAAATGAAA
1 AAAAGGTGCCCTAAATGAAAATGCATAACGGTGCATTATCGACATAAAAGGTGCCATAAATGAAA
* * *
2192860 GTGCATAACGTTGCATTATTGGCAT
66 ATGCATAACGGTGCATTATCGGCAT
* * * *
2192885 AAAAGGTGTCGTAAATGAAAATGCATAAAGGTGCATTGTCAGA-ATAAAAGGTGCCATAAATGAA
1 AAAAGGTGCCCTAAATGAAAATGCATAACGGTGCATTATC-GACATAAAAGGTGCCATAAATGAA
*
2192949 AATGCATAATGGTGCATTATCGGCAT
65 AATGCATAACGGTGCATTATCGGCAT
* * * *
2192975 AAAAGGTGCCACT-ATTGAAATTGCATAACGGTGCATTATTGGCA-AAAAGGTG
1 AAAAGGTGCC-CTAAATGAAAATGCATAACGGTGCATTATCGACATAAAAGGTG
2193027 TCATTTATGG
Statistics
Matches: 118, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
89 9 0.08
90 106 0.90
91 3 0.03
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (90 bp):
AAAAGGTGCCCTAAATGAAAATGCATAACGGTGCATTATCGACATAAAAGGTGCCATAAATGAAA
ATGCATAACGGTGCATTATCGGCAT
Found at i:2193131 original size:20 final size:20
Alignment explanation
Indices: 2193106--2193144 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2193096 CTTATTTAAC
2193106 ATAATTTGGG-CAAAATAAGT
1 ATAA-TTGGGACAAAATAAGT
2193126 ATAATTGGGAACAAAATAA
1 ATAATTGGG-ACAAAATAA
2193145 AGAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (20 bp):
ATAATTGGGACAAAATAAGT
Found at i:2197070 original size:53 final size:53
Alignment explanation
Indices: 2197002--2197257 Score: 399
Period size: 53 Copynumber: 4.9 Consensus size: 53
2196992 TTGAGATGTT
* *
2197002 CAACCATGTTATTCATAATGAGTTTGTGAATTACCATTTCGGCACTATGTGTG
1 CAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGGCACTATGTATG
* * *
2197055 CAACCATGGTTTTCATAATGAGTTTGTGAATTGCCATTTCGACACTATGTATG
1 CAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGGCACTATGTATG
*
2197108 CAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTTGGCACTATGTATG
1 CAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGGCACTATGTATG
* * *
2197161 CAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGGAACTATATGTG
1 CAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGGCACTATGTATG
* *
2197214 CATCCATGGTATTCATAATGAG--TGTGAATTACCATTTCGACACT
1 CAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGGCACT
2197258 TAGGTGCAAC
Statistics
Matches: 187, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
51 20 0.11
53 167 0.89
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
CAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGGCACTATGTATG
Found at i:2204996 original size:22 final size:23
Alignment explanation
Indices: 2204963--2205011 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
2204953 CAATCACATA
*
2204963 TTCA-ATTCTCATAATCAGTACT
1 TTCACATTCTCATAATCAATACT
*
2204985 TTCACATT-TCATATTCAATACT
1 TTCACATTCTCATAATCAATACT
2205007 TTCAC
1 TTCAC
2205012 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (23 bp):
TTCACATTCTCATAATCAATACT
Found at i:2206111 original size:24 final size:24
Alignment explanation
Indices: 2206077--2206123 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2206067 ACGAAATAAC
2206077 ATTCATAATAAACATCATATATAT
1 ATTCATAATAAACATCATATATAT
* *
2206101 ATTCATGATAAATATCATATATA
1 ATTCATAATAAACATCATATATA
2206124 ATAATAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTCATAATAAACATCATATATAT
Found at i:2208629 original size:29 final size:29
Alignment explanation
Indices: 2208558--2208639 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
2208548 ATTTTTTGGT
* *
2208558 AAAA-TTACCACTTTGGTCCCTAAAAGTTTC
1 AAAATTTA-CACTTTGGTCACT-AAACTTTC
* * *
2208588 CAATTTTAAACTTTGGTCACTAAACTTTC
1 AAAATTTACACTTTGGTCACTAAACTTTC
*
2208617 AAAATTTACACTTTGGTGACTAA
1 AAAATTTACACTTTGGTCACTAA
2208640 CCAAAAATTG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
29 26 0.62
30 13 0.31
31 3 0.07
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (29 bp):
AAAATTTACACTTTGGTCACTAAACTTTC
Found at i:2228560 original size:17 final size:18
Alignment explanation
Indices: 2228528--2228571 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
2228518 TTGTTTTATT
*
2228528 TTTATTTTAGTGA-TTTC
1 TTTATTTTAATGATTTTC
*
2228545 TTTATTTTAATTATTTTC
1 TTTATTTTAATGATTTTC
*
2228563 CTTATTTTA
1 TTTATTTTA
2228572 TTTTAGGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTATTTTAATGATTTTC
Found at i:2234972 original size:22 final size:22
Alignment explanation
Indices: 2234921--2234963 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2234911 CAGACGATCA
*
2234921 CATATTCAATACTTTCACATTT
1 CATATTCAATACTTCCACATTT
2234943 CATATTCAATACTTCCA-ATTT
1 CATATTCAATACTTCCACATTT
2234964 TCAATTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (22 bp):
CATATTCAATACTTCCACATTT
Found at i:2236806 original size:11 final size:11
Alignment explanation
Indices: 2236780--2236814 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2236770 AATTCTTATC
2236780 TTTATTATTCCA
1 TTTATTATT-CA
2236792 TTTATTATTCA
1 TTTATTATTCA
*
2236803 TTTATTAATCA
1 TTTATTATTCA
2236814 T
1 T
2236815 ATTCCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATTATTCA
Found at i:2239445 original size:14 final size:12
Alignment explanation
Indices: 2239426--2239473 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
2239416 GGCACATTCG
2239426 GCTATAACTTGGGA
1 GCTATAA-TT-GGA
2239440 GCTAT-ATTGGA
1 GCTATAATTGGA
2239451 GCTAT-ATTGGA
1 GCTATAATTGGA
2239462 GCTA-AA-TGGA
1 GCTATAATTGGA
2239472 GC
1 GC
2239474 ATGCAACAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.18
11 19 0.58
12 2 0.06
13 1 0.03
14 5 0.15
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (12 bp):
GCTATAATTGGA
Found at i:2239453 original size:11 final size:11
Alignment explanation
Indices: 2239437--2239465 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2239427 CTATAACTTG
2239437 GGAGCTATATT
1 GGAGCTATATT
2239448 GGAGCTATATT
1 GGAGCTATATT
2239459 GGAGCTA
1 GGAGCTA
2239466 AATGGAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.31, T:0.31
Consensus pattern (11 bp):
GGAGCTATATT
Found at i:2240360 original size:22 final size:21
Alignment explanation
Indices: 2240330--2240370 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2240320 CATCTCCTTT
*
2240330 TCATCATCAACCCCATCAACA
1 TCATCATCAACACCATCAACA
*
2240351 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACACCATCAA
2240371 TTTCGCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACACCATCAACA
Found at i:2245531 original size:29 final size:29
Alignment explanation
Indices: 2245499--2245555 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
2245489 TTTACAAAGT
2245499 TTATAACTTT-GTAACCAAACTTTCAAAAC
1 TTAT-ACTTTGGTAACCAAACTTTCAAAAC
* * *
2245528 TTATATTTTGGTCACTAAACTTTCAAAA
1 TTATACTTTGGTAACCAAACTTTCAAAA
2245556 AATATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.39
Consensus pattern (29 bp):
TTATACTTTGGTAACCAAACTTTCAAAAC
Found at i:2245561 original size:29 final size:29
Alignment explanation
Indices: 2245515--2245574 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
2245505 CTTTGTAACC
**
2245515 AAACTTTCAAAACTTATATTTTGGTCACT
1 AAACTTTCAAAAAATATATTTTGGTCACT
2245544 AAACTTTCAAAAAATATATTTTGGTCACT
1 AAACTTTCAAAAAATATATTTTGGTCACT
2245573 AA
1 AA
2245575 CCAAAATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (29 bp):
AAACTTTCAAAAAATATATTTTGGTCACT
Found at i:2246502 original size:20 final size:22
Alignment explanation
Indices: 2246462--2246503 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2246452 GTACAAATAA
*
2246462 GATGTTGTGGCAAGCTGAAATG
1 GATGTTGTGGCAAGATGAAATG
2246484 GATGTTGTGG-AA-ATGAAATG
1 GATGTTGTGGCAAGATGAAATG
2246504 ATGGTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.29
Consensus pattern (22 bp):
GATGTTGTGGCAAGATGAAATG
Found at i:2248082 original size:20 final size:20
Alignment explanation
Indices: 2248043--2248084 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2248033 ATTCCACCAC
*
2248043 ATGCACCTATATGCTCCTAA
1 ATGCACCTATATGATCCTAA
* *
2248063 ATGCATCTATATGATTCTAA
1 ATGCACCTATATGATCCTAA
2248083 AT
1 AT
2248085 AGGCTCTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGCACCTATATGATCCTAA
Found at i:2253077 original size:16 final size:16
Alignment explanation
Indices: 2253056--2253089 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2253046 TGAACGGTCT
*
2253056 CATAAAATCAATGCCC
1 CATAAAATCAACGCCC
2253072 CATAAAATCAACGCCC
1 CATAAAATCAACGCCC
2253088 CA
1 CA
2253090 AATCAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.15
Consensus pattern (16 bp):
CATAAAATCAACGCCC
Found at i:2256406 original size:18 final size:19
Alignment explanation
Indices: 2256366--2256406 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
2256356 AACATGGTCT
2256366 TTGTAGTTGCAATGAACTC
1 TTGTAGTTGCAATGAACTC
*
2256385 TTGTA-TTGTCAA-GAACTG
1 TTGTAGTTG-CAATGAACTC
2256403 TTGT
1 TTGT
2256407 TAAATGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.41
Consensus pattern (19 bp):
TTGTAGTTGCAATGAACTC
Found at i:2257433 original size:21 final size:21
Alignment explanation
Indices: 2257389--2257433 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2257379 GCCACAATTC
* *
2257389 TAGGATTTAAGTCATCCAGGA
1 TAGGATTTAAGTCATCAAGAA
* *
2257410 TAGGGTTTAAGTGATCAAGAA
1 TAGGATTTAAGTCATCAAGAA
2257431 TAG
1 TAG
2257434 TACGAGTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.29
Consensus pattern (21 bp):
TAGGATTTAAGTCATCAAGAA
Found at i:2259784 original size:143 final size:140
Alignment explanation
Indices: 2259507--2259784 Score: 450
Period size: 143 Copynumber: 2.0 Consensus size: 140
2259497 TATTCAATGA
** * *
2259507 CCAATTAATCATCTTCAACAACTTTTCAGTGATATATCAATTTTTTTAGAAAACGTTTTTCAGTG
1 CCAATTAATCATCTTCAACAACTTTTCAGTGATATATCAATCATTTTAGAAAAC-ATTTTCAATG
*
2259572 GTGATATATCACTTCATATAAAAAACTGTATTTCTCATAGGCAAAATAATGCACCATGGCAGAAA
65 GTGATATATCACTTCATATAAAAAACTGCATTTCTCATAGGCAAAATAATGCACCATGGCAGAAA
2259637 CTTTTTTGTGC
130 CTTTTTTGTGC
2259648 CCAATTAATCATCTTCAACAACTTTTCAGTGATATATCAACTCATTTTAGAAAA-ATTTTCAATG
1 CCAATTAATCATCTTCAACAACTTTTCAGTGATATATCAA-TCATTTTAGAAAACATTTTCAATG
*
2259712 GTGATATATCACTTCATATAAGGAAAACGTGCATTTCTCATAGGCAAAATAATGCACCATGGCCG
65 GTGATATATCACTTCATATAA--AAAAC-TGCATTTCTCATAGGCAAAATAATGCACCATGGCAG
2259777 AAACTTTT
127 AAACTTTT
2259785 CAGTTCATAA
Statistics
Matches: 127, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
140 29 0.23
141 40 0.31
142 16 0.13
143 42 0.33
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (140 bp):
CCAATTAATCATCTTCAACAACTTTTCAGTGATATATCAATCATTTTAGAAAACATTTTCAATGG
TGATATATCACTTCATATAAAAAACTGCATTTCTCATAGGCAAAATAATGCACCATGGCAGAAAC
TTTTTTGTGC
Found at i:2262343 original size:15 final size:15
Alignment explanation
Indices: 2262323--2262361 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2262313 AACACCTAAG
2262323 TTTTGAAAATTGAAA
1 TTTTGAAAATTGAAA
* * *
2262338 TTTTGATACTTGAAC
1 TTTTGAAAATTGAAA
2262353 TTTTGAAAA
1 TTTTGAAAA
2262362 ATACTCTTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (15 bp):
TTTTGAAAATTGAAA
Found at i:2264461 original size:18 final size:18
Alignment explanation
Indices: 2264421--2264458 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
2264411 AATGATGGTT
*
2264421 AAAGAAG-AGGATGATCA
1 AAAGAAGAAAGATGATCA
2264438 AAAGAAGAAAGATGATACA
1 AAAGAAGAAAGATGAT-CA
2264457 AA
1 AA
2264459 GAATGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 7 0.39
19 4 0.22
ACGTcount: A:0.61, C:0.05, G:0.24, T:0.11
Consensus pattern (18 bp):
AAAGAAGAAAGATGATCA
Found at i:2272752 original size:20 final size:20
Alignment explanation
Indices: 2272727--2272817 Score: 146
Period size: 20 Copynumber: 4.5 Consensus size: 20
2272717 TACTGTACTA
*
2272727 TATGAATAGTACCAATAATG
1 TATGAATAGTACCAATAGTG
2272747 TATGAATAGTACCAATAGTG
1 TATGAATAGTACCAATAGTG
*
2272767 TATGAATAGTATCAATAGTG
1 TATGAATAGTACCAATAGTG
* *
2272787 TATGAATAGTACCGATACTG
1 TATGAATAGTACCAATAGTG
2272807 TATGAATAGTA
1 TATGAATAGTA
2272818 TCGATACTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGAATAGTACCAATAGTG
Found at i:2272776 original size:11 final size:11
Alignment explanation
Indices: 2272760--2272796 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2272750 GAATAGTACC
2272760 AATAGTGTATG
1 AATAGTGTATG
*
2272771 AATA--GTATC
1 AATAGTGTATG
2272780 AATAGTGTATG
1 AATAGTGTATG
2272791 AATAGT
1 AATAGT
2272797 ACCGATACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.35
Consensus pattern (11 bp):
AATAGTGTATG
Found at i:2272822 original size:20 final size:20
Alignment explanation
Indices: 2272708--2272837 Score: 145
Period size: 20 Copynumber: 6.5 Consensus size: 20
2272698 ACTATTTTTT
** *
2272708 TATGAATAGTA-CTGTACTA
1 TATGAATAGTACCAATACTG
*
2272727 TATGAATAGTACCAATAATG
1 TATGAATAGTACCAATACTG
*
2272747 TATGAATAGTACCAATAGTG
1 TATGAATAGTACCAATACTG
* *
2272767 TATGAATAGTATCAATAGTG
1 TATGAATAGTACCAATACTG
*
2272787 TATGAATAGTACCGATACTG
1 TATGAATAGTACCAATACTG
* * *
2272807 TATGAATAGTATCGATACTA
1 TATGAATAGTACCAATACTG
*
2272827 TATGAAAAGTA
1 TATGAATAGTA
2272838 ATAAACTGTA
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
19 11 0.11
20 87 0.89
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (20 bp):
TATGAATAGTACCAATACTG
Found at i:2276237 original size:20 final size:20
Alignment explanation
Indices: 2276212--2276251 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2276202 TGTACTGTAT
*
2276212 GAATAGTATCGATATTGCTA
1 GAATAGTATCGATAATGCTA
*
2276232 GAATAGTGTCGATAATGCTA
1 GAATAGTATCGATAATGCTA
2276252 CAGTAGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
GAATAGTATCGATAATGCTA
Found at i:2280254 original size:18 final size:18
Alignment explanation
Indices: 2280231--2280273 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2280221 GTTTACGAGT
* *
2280231 GTTATTTTATTATTTTGA
1 GTTATTTTATCAGTTTGA
2280249 GTTATTTTATCAGTTTGA
1 GTTATTTTATCAGTTTGA
2280267 GTTATTT
1 GTTATTT
2280274 GAGTCTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (18 bp):
GTTATTTTATCAGTTTGA
Found at i:2281551 original size:19 final size:19
Alignment explanation
Indices: 2281527--2281571 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2281517 TATAAAATCT
2281527 GAATACAATAATGTCCTAC
1 GAATACAATAATGTCCTAC
* * *
2281546 GAATACAATATTGTCTTAT
1 GAATACAATAATGTCCTAC
2281565 GAATACA
1 GAATACA
2281572 CATGCCCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (19 bp):
GAATACAATAATGTCCTAC
Found at i:2281937 original size:32 final size:32
Alignment explanation
Indices: 2281901--2281984 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
2281891 ACTGTAATTG
* *
2281901 CTATGCATTATCTGAATGCGACCCTGAAACTA
1 CTATGCATTATCTGAATGCAACACTGAAACTA
* * * * *
2281933 CTATGCATTATCTTAATACAACACTGACATTG
1 CTATGCATTATCTGAATGCAACACTGAAACTA
2281965 CTATGCATTATCTGAATGCA
1 CTATGCATTATCTGAATGCA
2281985 TCTCCGACAC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (32 bp):
CTATGCATTATCTGAATGCAACACTGAAACTA
Found at i:2283971 original size:32 final size:33
Alignment explanation
Indices: 2283902--2283993 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 33
2283892 CTAAGAAAGC
* *
2283902 ACCTT-GGGCCTTAGAGGATACCCAAGGGAGCTT
1 ACCTTGGGGCCTAAGAGCATACCCAAGGGA-CTT
*
2283935 --CTTGGGGCCTAAGTGCATACCCAAGGGA-TT
1 ACCTTGGGGCCTAAGAGCATACCCAAGGGACTT
* * *
2283965 ACCTTGGGGTCTAAAAGCCTACCCAAGGG
1 ACCTTGGGGCCTAAGAGCATACCCAAGGG
2283994 TCATCATAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
30 2 0.04
31 3 0.06
32 44 0.90
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (33 bp):
ACCTTGGGGCCTAAGAGCATACCCAAGGGACTT
Found at i:2288001 original size:35 final size:35
Alignment explanation
Indices: 2287937--2288035 Score: 162
Period size: 35 Copynumber: 2.8 Consensus size: 35
2287927 ATTAATTTAG
* *
2287937 CACTAGAGTGTATATCCACAGACACTTAGTGCATAA
1 CACTAGAGTGTGTACCCA-AGACACTTAGTGCATAA
2287973 CACTAGAGTGTGTACCCAAGACACTTAGTGCATAA
1 CACTAGAGTGTGTACCCAAGACACTTAGTGCATAA
*
2288008 CGCTAGAGTGTGTACCCAAGACACTTAG
1 CACTAGAGTGTGTACCCAAGACACTTAG
2288036 AGTATATGGT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
35 44 0.73
36 16 0.27
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (35 bp):
CACTAGAGTGTGTACCCAAGACACTTAGTGCATAA
Found at i:2288268 original size:14 final size:17
Alignment explanation
Indices: 2288234--2288280 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2288224 TTATATATGT
2288234 TATTATATATATAATAA
1 TATTATATATATAATAA
*
2288251 TATTATAT-TATAAATAT
1 TATTATATATAT-AATAA
*
2288268 TATTATTTATATA
1 TATTATATATATA
2288281 GCCTGAAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTATATATATAATAA
Found at i:2288279 original size:12 final size:12
Alignment explanation
Indices: 2288221--2288279 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
2288211 CGAGTGACGT
*
2288221 TTATTATATATG
1 TTATTATATATA
2288233 TTATTATATATA
1 TTATTATATATA
* *
2288245 TAATAATAT-TA
1 TTATTATATATA
*
2288256 -TATTATAAATA
1 TTATTATATATA
*
2288267 TTATTATTTATA
1 TTATTATATATA
2288279 T
1 T
2288280 AGCCTGAAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 28 0.76
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TTATTATATATA
Found at i:2296619 original size:42 final size:42
Alignment explanation
Indices: 2296560--2296667 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 42
2296550 TAGAATGCTG
* * * *
2296560 GGGCATGATGAAGGCCCATTTCAGTCAGAAATAATCCATGTA
1 GGGCATGCTGAAGGCCCATTTCAGTAAAAAATAATACATGTA
* *
2296602 GGGCATGCTGAAGGCCCATTTCTGTAAAAAATAATATATGTA
1 GGGCATGCTGAAGGCCCATTTCAGTAAAAAATAATACATGTA
* **
2296644 GGGCGTGCTGAAGGCTTATTTCAG
1 GGGCATGCTGAAGGCCCATTTCAG
2296668 ACAAAAAGGA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (42 bp):
GGGCATGCTGAAGGCCCATTTCAGTAAAAAATAATACATGTA
Found at i:2297360 original size:22 final size:22
Alignment explanation
Indices: 2297332--2297398 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
2297322 TTCATATCTA
* *
2297332 CATTCTGTAAGGATGATAGATT
1 CATTCTGCAAAGATGATAGATT
2297354 CATTCTGCAAAGATGATAGATT
1 CATTCTGCAAAGATGATAGATT
* * *
2297376 C-TCTTTTCAAAGATTATAGATT
1 CAT-TCTGCAAAGATGATAGATT
2297398 C
1 C
2297399 TATTTTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (22 bp):
CATTCTGCAAAGATGATAGATT
Found at i:2297399 original size:22 final size:22
Alignment explanation
Indices: 2297343--2297410 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
2297333 ATTCTGTAAG
*
2297343 GATGATAGATTC-ATTCTGCAAA
1 GATGATAGATTCTATT-TTCAAA
*
2297365 GATGATAGATTCTCTTTTCAAA
1 GATGATAGATTCTATTTTCAAA
*
2297387 GATTATAGATTCTATTTTCAAA
1 GATGATAGATTCTATTTTCAAA
2297409 GA
1 GA
2297411 CGAAGGCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 39 0.95
23 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (22 bp):
GATGATAGATTCTATTTTCAAA
Found at i:2298375 original size:88 final size:88
Alignment explanation
Indices: 2298219--2298416 Score: 279
Period size: 88 Copynumber: 2.2 Consensus size: 88
2298209 AAATTTGCTT
* * *
2298219 TCCACGAAAGAGTAGTGGAACAAATTTTTTAGCAAAGTATGAGAGCTTCACGGAAGAGTTGTGAA
1 TCCACGGAAGAGTAGTGGAACAAATTTTTTAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGAA
* *
2298284 GTAATCCAAGTTTTAATCTGAAC
66 GTAATCCAAGTTTGAATCTAAAC
* * *
2298307 TCCACGGAAGAGTAGTGGAACAAATTTTTTTGCAAAGTATGAGAACTTCATGGAAGAGTAGTGGA
1 TCCACGGAAGAGTAGTGGAACAAATTTTTTAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGAA
*
2298372 GTAATCCAAGTTTGAGTCTAAAC
66 GTAATCCAAGTTTGAATCTAAAC
* * * *
2298395 TTCATGGAATAGTAGTGAAACA
1 TCCACGGAAGAGTAGTGGAACA
2298417 GATTATATTC
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 97 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (88 bp):
TCCACGGAAGAGTAGTGGAACAAATTTTTTAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGAA
GTAATCCAAGTTTGAATCTAAAC
Found at i:2305665 original size:26 final size:26
Alignment explanation
Indices: 2305629--2305685 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
2305619 CTGTAGTGAT
*
2305629 TACATATAAGGTCGTGCCCACCATAA
1 TACACATAAGGTCGTGCCCACCATAA
*
2305655 TACACATAAGGTCGTGCCTACCATAA
1 TACACATAAGGTCGTGCCCACCATAA
2305681 TACAC
1 TACAC
2305686 TTAGTGCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (26 bp):
TACACATAAGGTCGTGCCCACCATAA
Found at i:2317818 original size:2 final size:2
Alignment explanation
Indices: 2317798--2317841 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
2317788 TCTTAGCAGC
* * *
2317798 TA TA TA CA TA CA TA CA 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
2317840 TA
1 TA
2317842 CATCAATTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:2328630 original size:22 final size:21
Alignment explanation
Indices: 2328588--2328627 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2328578 GAGTTTGTTT
*
2328588 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2328609 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2328628 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2332726 original size:26 final size:26
Alignment explanation
Indices: 2332696--2332804 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
2332686 CCGTAGTGCT
** *
2332696 TACACATAAGGTTATACCCACCATAA
1 TACACATAAGGTCGTGCCCACCATAA
* *
2332722 TACACATAAGGTCGTGTCAACCATAA
1 TACACATAAGGTCGTGCCCACCATAA
**
2332748 TACACATAAGGTCGTGCAGACCATAA
1 TACACATAAGGTCGTGCCCACCATAA
*
2332774 TACACATAAGGTCGTGTCCACCATAA
1 TACACATAAGGTCGTGCCCACCATAA
2332800 TACAC
1 TACAC
2332805 TTAGTTCCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (26 bp):
TACACATAAGGTCGTGCCCACCATAA
Found at i:2332758 original size:52 final size:52
Alignment explanation
Indices: 2332696--2332804 Score: 164
Period size: 52 Copynumber: 2.1 Consensus size: 52
2332686 CCGTAGTGCT
* *
2332696 TACACATAAGGTTATACCCACCATAATACACATAAGGTCGTGTCAACCATAA
1 TACACATAAGGTCATACACACCATAATACACATAAGGTCGTGTCAACCATAA
* * * *
2332748 TACACATAAGGTCGTGCAGACCATAATACACATAAGGTCGTGTCCACCATAA
1 TACACATAAGGTCATACACACCATAATACACATAAGGTCGTGTCAACCATAA
2332800 TACAC
1 TACAC
2332805 TTAGTTCCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (52 bp):
TACACATAAGGTCATACACACCATAATACACATAAGGTCGTGTCAACCATAA
Found at i:2333746 original size:29 final size:30
Alignment explanation
Indices: 2333679--2333747 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
2333669 TAACCATTCA
* *
2333679 CAAATTTTCCAAAATTGCCAAATTGGTCCC
1 CAAATTTTTCAAAATTGACAAATTGGTCCC
* *
2333709 CTAACTTTTCATAAATT-ACAAA-TGGTCCC
1 CAAATTTTTCA-AAATTGACAAATTGGTCCC
2333738 CAAATTTTTC
1 CAAATTTTTC
2333748 TAAGTCTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 15 0.47
30 12 0.38
31 5 0.16
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (30 bp):
CAAATTTTTCAAAATTGACAAATTGGTCCC
Found at i:2334473 original size:31 final size:31
Alignment explanation
Indices: 2334438--2334500 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
2334428 AATTACCATT
*
2334438 AAACCATGGCACCTAAACCTTATAATATTCC
1 AAACCAAGGCACCTAAACCTTATAATATTCC
* * * *
2334469 AAACCAAGTCACCTCAACCTTATCATCTTCC
1 AAACCAAGGCACCTAAACCTTATAATATTCC
2334500 A
1 A
2334501 TAAGTCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.33, G:0.05, T:0.25
Consensus pattern (31 bp):
AAACCAAGGCACCTAAACCTTATAATATTCC
Found at i:2338684 original size:20 final size:20
Alignment explanation
Indices: 2338647--2338689 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2338637 ATTCCACCAC
*
2338647 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
2338667 ATGCATCTAAATGTTCCTAA
1 ATGCAACTAAATGCTCCTAA
2338687 ATG
1 ATG
2338690 TGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:2349011 original size:20 final size:20
Alignment explanation
Indices: 2348974--2349016 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2348964 ATTCCACCAC
*
2348974 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
2348994 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
2349014 ATG
1 ATG
2349017 TGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:2353652 original size:496 final size:496
Alignment explanation
Indices: 2352719--2353698 Score: 1791
Period size: 496 Copynumber: 2.0 Consensus size: 496
2352709 CAATGAAAGT
2352719 GAGAAATCATGAGCAAATGGAGTGTGTAAATGAGTTATCTTAGGCCCCAAGAAAATGTATGGAAT
1 GAGAAATCATGAGCAAATGGAGTGTGTAAATGAGTTATCTTAGGCCCCAAGAAAATGTATGGAAT
2352784 CACTTCTTAAAAACTCTATTAATACCTACCTCGCACCATACAACTGTCTCATTGCATCAGATGCT
66 CACTTCTTAAAAACTCTATTAATACCTACCTCGCACCATACAACTGTCTCATTGCATCAGATGCT
* * *
2352849 TGTTTTGCACTCCATAATTTTTGGATGACCGATCAATATCATCAAGGTCATCGTCCGACAAGTAT
131 TCTTTTGCACTCCATAATTTTTAGATGACCAATCAATATCATCAAGGTCATCGTCCGACAAGTAT
*
2352914 ATAATTATATCAAGAAGAAAAAGGGCACATTGATCTTTTAAAACTTGATCACCGCCATATGTGGA
196 ATAATTATATCAAGAAGAAAAAGGGCACATTGATCTTTTAAAACTTGATCACCGCCATATGTGAA
* *
2352979 AAGAAAAAGGTGGTGGAAGTGATGTTCGAAAAGTTGATACCAATACAGGTTGGCATAACTGTAAA
261 AAGAAAAAGGTGGTGGAAGTGATGTTCGAAAAGTCGATACCAATAAAGGTTGGCATAACTGTAAA
* * * *
2353044 GGTGATTATTGAGCTGAAGGGCTTTGATGATGATGTCCCTAAGGAGACCCTGGTAAGAGGTGCAA
326 GCTGATTATTGAGCTGAAGGGCATTGATGAAGATGTACCTAAGGAGACCCTGGTAAGAGGTGCAA
2353109 AAACTATTATCGTAGCAAGAATGAGAGTTATAGTGGGCTTCTCTTGAGAAACTAAGGAGTGAGTG
391 AAACTATTATCGTAGCAAGAATGAGAGTTATAGTGGGCTTCTCTTGAGAAACTAAGGAGTGAGTG
2353174 GAGAAGATGGACACCATGATGCATAATTTTTGAGCTGAGTG
456 GAGAAGATGGACACCATGATGCATAATTTTTGAGCTGAGTG
2353215 GAGAAATCATGAGCAAATGGAGTGTGTAAATGAGTTATCTTAGGCCCCAAGAAAATGTATGGAAT
1 GAGAAATCATGAGCAAATGGAGTGTGTAAATGAGTTATCTTAGGCCCCAAGAAAATGTATGGAAT
*
2353280 CACTTCTTAAAAACTCTATTAATGCCTACCTCGCACCATACAACTGTCTCATTGCATCAGATGCT
66 CACTTCTTAAAAACTCTATTAATACCTACCTCGCACCATACAACTGTCTCATTGCATCAGATGCT
2353345 TCTTTTGCACTCCATAATTTTTAGATGACCAATCAATATCATCAAGGTCATCGAT-CGACAAGTA
131 TCTTTTGCACTCCATAATTTTTAGATGACCAATCAATATCATCAAGGTCATCG-TCCGACAAGTA
* * * *
2353409 TATAATTATATCAAGCAGATAAAGGTCACATTGATCTTTTAAAACTTGATCATCGCCATATGTGA
195 TATAATTATATCAAGAAGAAAAAGGGCACATTGATCTTTTAAAACTTGATCACCGCCATATGTGA
2353474 AAAGAAAAAGGTGGTGGAAGTGATGTTCGAAAAGTCGATACCAATAAAGGTTGGCATAACTGTAA
260 AAAGAAAAAGGTGGTGGAAGTGATGTTCGAAAAGTCGATACCAATAAAGGTTGGCATAACTGTAA
*
2353539 AGCTGATTGTTGAGCTGAAGGGCATTGATGAAGATGTACCTAAGGAGACCCTGGTAAGAGGTGCA
325 AGCTGATTATTGAGCTGAAGGGCATTGATGAAGATGTACCTAAGGAGACCCTGGTAAGAGGTGCA
*
2353604 AAAACTATTATCGTAGCAAGAATGAGAGTTATATTGGGCTTCTCTTGAGAAACTAAGGAGTGAGT
390 AAAACTATTATCGTAGCAAGAATGAGAGTTATAGTGGGCTTCTCTTGAGAAACTAAGGAGTGAGT
2353669 GGAGAAGATGGACACCATGATGCATAATTT
455 GGAGAAGATGGACACCATGATGCATAATTT
2353699 CTTCAGCTAT
Statistics
Matches: 466, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
496 465 1.00
497 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (496 bp):
GAGAAATCATGAGCAAATGGAGTGTGTAAATGAGTTATCTTAGGCCCCAAGAAAATGTATGGAAT
CACTTCTTAAAAACTCTATTAATACCTACCTCGCACCATACAACTGTCTCATTGCATCAGATGCT
TCTTTTGCACTCCATAATTTTTAGATGACCAATCAATATCATCAAGGTCATCGTCCGACAAGTAT
ATAATTATATCAAGAAGAAAAAGGGCACATTGATCTTTTAAAACTTGATCACCGCCATATGTGAA
AAGAAAAAGGTGGTGGAAGTGATGTTCGAAAAGTCGATACCAATAAAGGTTGGCATAACTGTAAA
GCTGATTATTGAGCTGAAGGGCATTGATGAAGATGTACCTAAGGAGACCCTGGTAAGAGGTGCAA
AAACTATTATCGTAGCAAGAATGAGAGTTATAGTGGGCTTCTCTTGAGAAACTAAGGAGTGAGTG
GAGAAGATGGACACCATGATGCATAATTTTTGAGCTGAGTG
Found at i:2357248 original size:25 final size:25
Alignment explanation
Indices: 2357194--2357249 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
2357184 GCCACCTATG
* * *
2357194 GTGCAATTCTATGAGGCATTTTTGA
1 GTGCAATTCTACGAGGCACTTTCGA
*
2357219 CTGCAATTCTACGAGGCACTTTCGA
1 GTGCAATTCTACGAGGCACTTTCGA
2357244 GTGCAA
1 GTGCAA
2357250 ATATATTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (25 bp):
GTGCAATTCTACGAGGCACTTTCGA
Found at i:2367446 original size:55 final size:56
Alignment explanation
Indices: 2367375--2367527 Score: 195
Period size: 55 Copynumber: 2.8 Consensus size: 56
2367365 TAAGGGTGCA
* * *
2367375 AAAACTTAAGAAATTCATACTAAGTATATGAATTTCGGTATGGGCACTACGTGTTT
1 AAAACTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTACGTGTGT
* * *
2367431 AAAACTT-AGAAATTCATACTAAGTGTTTGAATTTCCGAATGGGCACTATGTGTGT
1 AAAACTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTACGTGTGT
* * * *
2367486 -AAA-TTAAGAAATCCATACTAAGGGTATTAATTTCTGTATGGG
1 AAAACTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
2367528 AAATATATGT
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 33 0.39
55 42 0.50
56 7 0.08
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (56 bp):
AAAACTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTACGTGTGT
Found at i:2367527 original size:54 final size:54
Alignment explanation
Indices: 2367380--2367544 Score: 174
Period size: 55 Copynumber: 3.1 Consensus size: 54
2367370 GTGCAAAAAC
* * * * *
2367380 TTAAGAAATTCATACTAAGTATATGAATTTCGGTATGGGCACTACGTGTTTAAAA
1 TTAAGAAATTCATACTAAGTGTATTAATTTCCGTATGGGCACTATGTGTGT-AAA
*
2367435 CTT-AGAAATTCATACTAAGTGT-TTGAATTTCCGAATGGGCACTATGTGTGTAAA
1 -TTAAGAAATTCATACTAAGTGTATT-AATTTCCGTATGGGCACTATGTGTGTAAA
* * * * * *
2367489 TTAAGAAATCCATACTAAGGGTATTAATTTCTGTATGGGAAATATATGTG-AAA
1 TTAAGAAATTCATACTAAGTGTATTAATTTCCGTATGGGCACTATGTGTGTAAA
2367542 TTA
1 TTA
2367545 TTAGAAGTGC
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
53 8 0.09
54 41 0.44
55 42 0.45
56 2 0.02
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (54 bp):
TTAAGAAATTCATACTAAGTGTATTAATTTCCGTATGGGCACTATGTGTGTAAA
Found at i:2367816 original size:68 final size:68
Alignment explanation
Indices: 2367737--2367924 Score: 263
Period size: 68 Copynumber: 2.8 Consensus size: 68
2367727 AAAGATTAAT
* *
2367737 AGGCCTAACTGTACATTTGACAGAAAGGCGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGACT
1 AGGCCTAACTGTGCATTTGACAGAAAGGCGTCAATTATGCAAGTTAGATGAAAGGCTAAGTGACT
2367802 TTG
66 TTG
** **
2367805 AGGCCTAACTGTGCATTTGACAGAAATTTC-TCAATTATG-ATAGTTAGATGAAAGGCTAAGTTC
1 AGGCCTAACTGTGCATTTGACAGAAA-GGCGTCAATTATGCA-AGTTAGATGAAAGGCTAAGTGA
2367868 CTTTG
64 CTTTG
* * *
2367873 AGGCCTAACTGTGCATTTGACATAAAGGTGTTAATTATGCAAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGCGTCAATTATGCAAGTTAGATGAA
2367925 CGATTAAATA
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
68 103 0.98
69 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGCGTCAATTATGCAAGTTAGATGAAAGGCTAAGTGACT
TTG
Found at i:2368012 original size:81 final size:81
Alignment explanation
Indices: 2367874--2368368 Score: 648
Period size: 81 Copynumber: 6.1 Consensus size: 81
2367864 GTTCCTTTGA
* * * * * * * *
2367874 GGCCTAACTGTGCATTTGACATAAAGGTGTTAATTATGCAAGTTAGATGAACGATTAAATAACGT
1 GGCCTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATAACGT
2367939 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * ** **
2367955 GTCCTAACTGAGCAATTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAATAATTAAATATTGT
1 GGCCTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATAACGT
*
2368020 TGAGTAAATGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
2368036 GGCCTAACTGAGAAATTGGCATAAAGGTGTCAATTTTGCAAGTTAGATGAATGGTTAAATAACAT
1 GGCCTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATAACGT
2368101 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
2368117 GGCCGAACTGAGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGATTAGTTAAATACCGT
1 GGCCTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATAACGT
2368182 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * *
2368198 GGCCTAACTAAGCAATTGGCATAAAAGTGTCAATTATGCCAGTTATATGAATGGTTAAATACCAT
1 GGCCTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATAACGT
2368263 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
2368279 GACCTAACTGAGCAATTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATATCGT
1 GGCCTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATAACGT
*
2368344 TGAGTAAAATAATAAT
66 TGAGTAAAAGAATAAT
*
2368360 GGACTAACT
1 GGCCTAACT
2368369 ATGCATTTGA
Statistics
Matches: 357, Mismatches: 57, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 357 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATAACGT
TGAGTAAAAGAATAAT
Found at i:2368143 original size:162 final size:162
Alignment explanation
Indices: 2367874--2368368 Score: 722
Period size: 162 Copynumber: 3.1 Consensus size: 162
2367864 GTTCCTTTGA
* * * * * * *
2367874 GGCCTAACTGTGCATTTGACATAAAGGTGTTAATTATGCAAGTTAGATGAACGATTAAATAACGT
1 GGCCTAACTGAGCAATTGGCATAAAGGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAACAT
* *
2367939 TGAGTAAAAGAATAATGTCCTAACTGAGCAATTGGTAGAAATGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATG
* *
2368004 AATAATTAAATATTGTTGAGTAAATGAATAAT
131 AATAGTTAAATATCGTTGAGTAAATGAATAAT
* *
2368036 GGCCTAACTGAGAAATTGGCATAAAGGTGTCAATTTTGCAAGTTAGATGAATGGTTAAATAACAT
1 GGCCTAACTGAGCAATTGGCATAAAGGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAACAT
* * *
2368101 TGAGTAAAAGAATAATGGCCGAACTGAGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATG
* * *
2368166 ATTAGTTAAATACCGTTGAGTAAAAGAATAAT
131 AATAGTTAAATATCGTTGAGTAAATGAATAAT
* * * * *
2368198 GGCCTAACTAAGCAATTGGCATAAAAGTGTCAATTATGCCAGTTATATGAATGGTTAAATACCAT
1 GGCCTAACTGAGCAATTGGCATAAAGGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAACAT
*
2368263 TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAAGGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATG
**
2368328 AACGGTTAAATATCGTTGAGTAAAAT-AATAAT
131 AATAGTTAAATATCGTTGAGT-AAATGAATAAT
*
2368360 GGACTAACT
1 GGCCTAACT
2368369 ATGCATTTGA
Statistics
Matches: 298, Mismatches: 34, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
162 295 0.99
163 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (162 bp):
GGCCTAACTGAGCAATTGGCATAAAGGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAACAT
TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATG
AATAGTTAAATATCGTTGAGTAAATGAATAAT
Found at i:2368369 original size:162 final size:162
Alignment explanation
Indices: 2367874--2368441 Score: 708
Period size: 162 Copynumber: 3.5 Consensus size: 162
2367864 GTTCCTTTGA
** * * * * * * *
2367874 GGCCTAACTGTGCATTTGACATAAAGGTGTTAATTATGCAAGTTAGATGAACGATTAAATAACGT
1 GGCCTAACTAAGCAATTGGCATAAAAGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAACAT
* *
2367939 TGAGTAAAAGAATAATGTCCTAACTGAGCAATTGGTAGAAATGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATG
* *
2368004 AATAATTAAATATTGTTGAGT-AAATGAATAAT
131 AATAGTTAAATATCGTTGAGTAAAAT-AATAAT
* * * *
2368036 GGCCTAACTGAGAAATTGGCATAAAGGTGTCAATTTTGCAAGTTAGATGAATGGTTAAATAACAT
1 GGCCTAACTAAGCAATTGGCATAAAAGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAACAT
* * *
2368101 TGAGTAAAAGAATAATGGCCGAACTGAGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATG
* * *
2368166 ATTAGTTAAATACCGTTGAGTAAAAGAATAAT
131 AATAGTTAAATATCGTTGAGTAAAATAATAAT
* * *
2368198 GGCCTAACTAAGCAATTGGCATAAAAGTGTCAATTATGCCAGTTATATGAATGGTTAAATACCAT
1 GGCCTAACTAAGCAATTGGCATAAAAGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAACAT
*
2368263 TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAAGGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATG
**
2368328 AACGGTTAAATATCGTTGAGTAAAATAATAAT
131 AATAGTTAAATATCGTTGAGTAAAATAATAAT
* * * * * *** * * * *
2368360 GGACTAACTATGCATTTGACCAAAAAAAGCACCAAATATGCAAGTTATATGAAAGGCTAAAT-AC
1 GGCCTAACTAAGCAATTG-GC-ATAAAAGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAAC
*
2368424 AATTGGGTAAAAGAATAA
64 -ATTGAGTAAAAGAATAA
2368442 AGGAATTATA
Statistics
Matches: 355, Mismatches: 47, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
162 302 0.85
163 5 0.01
164 48 0.14
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (162 bp):
GGCCTAACTAAGCAATTGGCATAAAAGTGTCAATTATGCAAGTTAGATGAATGGTTAAATAACAT
TGAGTAAAAGAATAATGACCTAACTGAGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATG
AATAGTTAAATATCGTTGAGTAAAATAATAAT
Found at i:2372886 original size:55 final size:55
Alignment explanation
Indices: 2372802--2372969 Score: 203
Period size: 55 Copynumber: 3.0 Consensus size: 55
2372792 ATTACCAAAT
* * * *
2372802 GGCACTAAGGGTGCAAAAACTTAAGAAATTCATACTGAGTGTATGAATTTCGGTATG
1 GGCACTATGTGTGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* *
2372859 GGCACTATGTGTGCAAAACTAAGAAATTCAGACTAAGTGTATGAATATCCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
* * ** * *
2372914 GGCACTATGTGTGC-AAACTAAAAAATCCATACTAACAGTATTAATTTCTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
2372968 GG
1 GG
2372970 AAATATATGT
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.35
55 46 0.47
56 5 0.05
57 12 0.12
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATG
Found at i:2372967 original size:54 final size:55
Alignment explanation
Indices: 2372842--2372969 Score: 168
Period size: 54 Copynumber: 2.3 Consensus size: 55
2372832 CATACTGAGT
* * * **
2372842 GTATGAATTTCGGTATGGGCACTATGTGTGCAAAACTAAGAAATTCAGACTAAGT
1 GTATGAATTTCCGTATGGGCACTATGTGTGCAAAACTAAAAAATCCAGACTAACA
* *
2372897 GTATGAATATCCGTATGGGCACTATGTGTGC-AAACTAAAAAATCCATACTAACA
1 GTATGAATTTCCGTATGGGCACTATGTGTGCAAAACTAAAAAATCCAGACTAACA
* *
2372951 GTATTAATTTCTGTATGGG
1 GTATGAATTTCCGTATGGG
2372970 AAATATATGT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 34 0.54
55 29 0.46
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (55 bp):
GTATGAATTTCCGTATGGGCACTATGTGTGCAAAACTAAAAAATCCAGACTAACA
Found at i:2373261 original size:68 final size:68
Alignment explanation
Indices: 2373180--2373502 Score: 513
Period size: 68 Copynumber: 4.8 Consensus size: 68
2373170 AAAGATTAAT
* * * * * *
2373180 AGGCCTAATTGTGCATTTCACATAAATGTGTCAATTATGCCAATTAGATGAAAGGATAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2373245 TTG
66 TTG
* * * * *
2373248 AGGCCTAACTGTGCATTTGACATAAAGATGTCAATTATGCTAGTTATATG-AATGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2373312 TTG
66 TTG
*
2373315 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGCCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2373380 TTG
66 TTG
* *
2373383 AGGCCTAACTGTGCATCTGACAGAATGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2373448 TTG
66 TTG
2373451 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2373503 CTGTTAAATA
Statistics
Matches: 234, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
67 61 0.26
68 173 0.74
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:2373422 original size:135 final size:136
Alignment explanation
Indices: 2373180--2373502 Score: 513
Period size: 135 Copynumber: 2.4 Consensus size: 136
2373170 AAAGATTAAT
* * * * * *
2373180 AGGCCTAATTGTGCATTTCACATAAATGTGTCAATTATGCCAATTAGATGAAAGGATAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGCATAAGTGCCT
* * * * *
2373245 TTGAGGCCTAACTGTGCATTTGACATAAAGATGTCAATTATGCTAGTTATATG-AATGCTAAGTG
66 TTGAGGCCTAACTGTGCATCTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
2373309 CCTTTG
131 CCTTTG
*
2373315 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGCCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGCATAAGTGCCT
* *
2373380 TTGAGGCCTAACTGTGCATCTGACAGAATGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
66 TTGAGGCCTAACTGTGCATCTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
2373445 CCTTTG
131 CCTTTG
2373451 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2373503 CTGTTAAATA
Statistics
Matches: 173, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
135 105 0.61
136 68 0.39
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (136 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGCATAAGTGCCT
TTGAGGCCTAACTGTGCATCTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
CCTTTG
Found at i:2373626 original size:81 final size:80
Alignment explanation
Indices: 2373452--2373997 Score: 682
Period size: 81 Copynumber: 6.8 Consensus size: 80
2373442 GTGCCTTTGA
* * * *
2373452 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACTGTTAAATACCGT
1 GGCCTAACTGAGCAATTG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
2373517 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
* * * * *
2373533 GGCCCAATTGAGCAATTCGCATAAATGTATCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
1 GGCCTAACTGAGCAATT-GCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
2373598 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
* *
2373614 GGTCTAACTGAGCAATTAGCAGAAAGCTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
1 GGCCTAACTGAGCAATT-GCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
*
2373679 TGGGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
* * *
2373695 GGCCTAACTGAGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGATCGATTAAATAC-GA
1 GGCCTAACTGAGCAATTG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
* *
2373759 TGATTAAAAGATTAAT
65 TGAGTAAAAGAATAAT
* * **
2373775 GGACTAACTGAGCAATTTGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCCT
1 GGCCTAACTGAGCAA-TTGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
*
2373840 TGAGAAAAAGAATAAT
65 TGAGTAAAAGAATAAT
*
2373856 GGCCTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAT-GTCG
1 GGCCTAACTGAGCAATT-GCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACT-G
*
2373920 TTGAGTAAAATAATAAT
64 TTGAGTAAAAGAATAAT
* * ** * * * * * * * *
2373937 GGACTAGCTGTTCATTTGAGAGAAAAGTGTTAAATATGCAAGTTAGATGAAAGGCTAAATA
1 GGCCTAACTGAGCAATTG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA
2373998 TAATCGGGTA
Statistics
Matches: 403, Mismatches: 54, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
80 72 0.18
81 330 0.82
82 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (80 bp):
GGCCTAACTGAGCAATTGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTT
GAGTAAAAGAATAAT
Found at i:2373880 original size:242 final size:243
Alignment explanation
Indices: 2373452--2373987 Score: 772
Period size: 242 Copynumber: 2.2 Consensus size: 243
2373442 GTGCCTTTGA
*
2373452 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACTGTTAAATACCGT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACTGTTAAATACCGA
* * *
2373517 TGAGTAAAAGAATAATGGCCCAATTGAGCAATTCGCATAAATGTATCAATTATGCCAGTTAGATG
66 TGAGTAAAAGAATAATGGACCAACTGAGCAATTCGCATAAAGGTATCAATTATGCCAGTTAGATG
** * *
2373582 AACGGTTAAATACTGTTGAGTAAAAGAATAATGGTCTAACTGAGCAATTAGCAGAAAGCTGTCAA
131 AACGGTTAAATACCCTTGAGAAAAAGAATAATGGCCTAACTGAGCAATTAGCAGAAAGCTGTCAA
*
2373647 TTATGCCAGTTAGATGAACGGTTAAATACT-GTTGGGTAAAAGAATAAT
196 TTATGCCAGTTAGATGAACGGTTAAAT-CTCGTTGAGTAAAAGAATAAT
* * *
2373695 GGCCTAACTGAGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGATC-GATTAAATA-CG
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACTG-TTAAATACCG
* * * * *
2373758 ATGATTAAAAGATTAATGGACTAACTGAGCAATTTGCATAAAGGTGTCAATTATGCCAGTTAGAT
65 ATGAGTAAAAGAATAATGGACCAACTGAGCAATTCGCATAAAGGTATCAATTATGCCAGTTAGAT
* *
2373823 GAACGGTTAAATACCCTTGAGAAAAAGAATAATGGCCTAACTGAGCAATTGGCAGAAAGGTGTCA
130 GAACGGTTAAATACCCTTGAGAAAAAGAATAATGGCCTAACTGAGCAATTAGCAGAAAGCTGTCA
* *
2373888 ATTATGCCAGTTAGATGAACGGTTAAATGTCGTTGAGTAAAATAATAAT
195 ATTATGCCAGTTAGATGAACGGTTAAATCTCGTTGAGTAAAAGAATAAT
* * * * * * * *
2373937 GGACTAGCTGTTCATTTGAGAGAAAAGTGTTAAATATGCAAGTTAGATGAA
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2373988 AGGCTAAATA
Statistics
Matches: 259, Mismatches: 32, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
241 1 0.00
242 202 0.78
243 56 0.22
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (243 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACTGTTAAATACCGA
TGAGTAAAAGAATAATGGACCAACTGAGCAATTCGCATAAAGGTATCAATTATGCCAGTTAGATG
AACGGTTAAATACCCTTGAGAAAAAGAATAATGGCCTAACTGAGCAATTAGCAGAAAGCTGTCAA
TTATGCCAGTTAGATGAACGGTTAAATCTCGTTGAGTAAAAGAATAAT
Found at i:2376970 original size:6 final size:7
Alignment explanation
Indices: 2376948--2376972 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2376938 ATTATACTAC
2376948 AAATGAA
1 AAATGAA
2376955 AAATGAA
1 AAATGAA
2376962 AAATGAA
1 AAATGAA
2376969 AAAT
1 AAAT
2376973 TTATGGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (7 bp):
AAATGAA
Found at i:2378659 original size:55 final size:54
Alignment explanation
Indices: 2378600--2378745 Score: 202
Period size: 55 Copynumber: 2.7 Consensus size: 54
2378590 TGCAAAATCT
*
2378600 TAAGAAATTCATACTAAGTGTATGAATTTCGGTATGGACACTATGTGTGTAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGACACTATGTGTG-AAAAC
* * *
2378655 TAAGAAATTCATACTAAGTGTATGAATATCCGTATGGGCACTATGTGTGCAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGACACTATGTGTGAAAAC
* * * * *
2378709 TAAAAAATCCATACTAACTATATTAATTTCCGTATGG
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGG
2378746 GAAATATATG
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 35 0.43
55 46 0.57
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (54 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGACACTATGTGTGAAAAC
Found at i:2379040 original size:68 final size:68
Alignment explanation
Indices: 2378958--2379213 Score: 408
Period size: 68 Copynumber: 3.8 Consensus size: 68
2378948 AAAGATTAAT
*
2378958 AGGCCTAACTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCCT
1 AGGCCTAACTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2379023 TTG
66 TTG
* * *
2379026 AGTCCTAACTGTGCATTTGACATAAA-GATGTCAATTATGCCAGTTAGAAGAAAGGCTAAATGCC
1 AGGCCTAACTGTGCATTTGACATAAATG-TGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCC
2379090 TTTG
65 TTTG
*
2379094 AGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2379159 TTG
66 TTG
* * *
2379162 AGGCCTAACTGTGGATTTGACA-GAATGGTATCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACATAAAT-GTGTCAATTATGCCAGTTAGATGAA
2379214 CGGTTAAATA
Statistics
Matches: 174, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
67 4 0.02
68 169 0.97
69 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:2379298 original size:81 final size:81
Alignment explanation
Indices: 2379192--2379566 Score: 596
Period size: 81 Copynumber: 4.7 Consensus size: 81
2379182 CAGAATGGTA
*
2379192 TCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATGGCCTAACTGAGA
1 TCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGAGA
2379257 AATTGGCATAAAGGTG
66 AATTGGCATAAAGGTG
* *
2379273 TCAATTATGCTAGTTAGATAAACGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGAGC
1 TCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGAG-
*
2379338 AAA-TGGCATAAATGTG
65 AAATTGGCATAAAGGTG
* * *
2379354 TCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGAATAATGGACTAACTGAGC
1 TCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGAGA
*
2379419 AATTTGCATAAAGGTG
66 AATTGGCATAAAGGTG
* *
2379435 TCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAATAATAATGGCCTAACTGAGC
1 TCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGAGA
* *
2379500 AATTGGAAAAAAGGTG
66 AATTGGCATAAAGGTG
*
2379516 TCAATTATGCCAATTAGAT---CGGTTAAATACCGTTGAGTAAAAGAATAATGG
1 TCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATGG
2379567 ACTAGGTTTT
Statistics
Matches: 273, Mismatches: 19, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
78 31 0.11
80 2 0.01
81 237 0.87
82 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (81 bp):
TCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGAGA
AATTGGCATAAAGGTG
Found at i:2382979 original size:54 final size:54
Alignment explanation
Indices: 2382896--2383139 Score: 353
Period size: 54 Copynumber: 4.5 Consensus size: 54
2382886 GTACTATCGA
* * * * * * *
2382896 CACTATGTATGCAACCCACGAAATTCATAATGAGTTTATGAATGATCATATTGG
1 CACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTATTGG
* *
2382950 TACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCGTATTGG
1 CACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTATTGG
* *
2383004 CACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCGTATTGC
1 CACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTATTGG
* *
2383058 CACTATGTGTACAACCTAAGTAATTCATAACGAGTTTATGAATTACCGTATTGG
1 CACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTATTGG
* *
2383112 AACTATGTGTTCAACCTAAGTAATTCAT
1 CACTATGTGTGCAACCTAAGTAATTCAT
2383140 GTACCACACA
Statistics
Matches: 173, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 173 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (54 bp):
CACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTATTGG
Found at i:2387208 original size:54 final size:54
Alignment explanation
Indices: 2387118--2387357 Score: 345
Period size: 54 Copynumber: 4.4 Consensus size: 54
2387108 CTATGTGTAC
* * * * * * *
2387118 TATTGACACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACTG
1 TATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCG
*
2387172 TATTGGCACTATGTGTGCAACCTAAGTAATTTATAATGAGTTTGTGAATTACCG
1 TATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCG
* * *
2387226 TATTGGAACTATGTGTGCAACCTATGTAATTCATAATGAGTTTGTGAATTACCA
1 TATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCG
*
2387280 TATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCG
1 TATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCG
* * *
2387334 TATTGGAACTATATGTGTAACCTA
1 TATTGGCACTATGTGTGCAACCTA
2387358 TGAGTTTATG
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 167 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (54 bp):
TATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCG
Found at i:2387307 original size:108 final size:106
Alignment explanation
Indices: 2387131--2387531 Score: 473
Period size: 108 Copynumber: 3.9 Consensus size: 106
2387121 TGACACTATG
* * * * * *
2387131 TGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACTGTATTGGCACTATGTGTGCAACCTA
1 TGTGCAACCTATGTAATTCATAATGAGTTTATGAATTACCGTATTAGCACTATGTGTGCAACCTA
*
2387196 AGTAATTTATAATGAGTTTGTGAATTACCGTATTGGAACTA
66 AGTAATTCATAATGAGTTTGTGAATTACCGTATTGGAACTA
* * *
2387237 TGTGTGCAACCTATGTAATTCATAATGAGTTTGTGAATTACCATATTGGCACTATGTGTGCAACC
1 --TGTGCAACCTATGTAATTCATAATGAGTTTATGAATTACCGTATTAGCACTATGTGTGCAACC
*
2387302 TAAGTAATTCATAATGAGTTTATGAATTACCGTATTGGAACTA
64 TAAGTAATTCATAATGAGTTTGTGAATTACCGTATTGGAACTA
* * * *
2387345 --T---A--TGTGTAA--CCT-ATGAGTTTATGAATTA-CGTATTAACACTATGTATGCAACCTA
1 TGTGCAACCTATGTAATTCATAATGAGTTTATGAATTACCGTATTAGCACTATGTGTGCAACCTA
* * * *
2387399 AATAATTCATAATGAGTTTGCGAATTACCATATTGGCACTA
66 AGTAATTCATAATGAGTTTGTGAATTACCGTATTGGAACTA
* * *
2387440 TGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCGTATTAGCACTATGTGTGCAACCCA
1 TGTGCAACCTATGTAATTCATAATGAGTTTATGAATTACCGTATTAGCACTATGTGTGCAACCTA
* * *
2387505 CGGAAATTCATAATGAGTTTGTAAATT
66 -AGTAATTCATAATGAGTTTGTGAATT
2387532 TCCATATCGC
Statistics
Matches: 248, Mismatches: 33, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
95 58 0.23
96 15 0.06
97 3 0.01
99 6 0.02
100 1 0.00
101 1 0.00
102 5 0.02
104 3 0.01
105 15 0.06
106 23 0.09
107 21 0.08
108 97 0.39
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (106 bp):
TGTGCAACCTATGTAATTCATAATGAGTTTATGAATTACCGTATTAGCACTATGTGTGCAACCTA
AGTAATTCATAATGAGTTTGTGAATTACCGTATTGGAACTA
Found at i:2387397 original size:41 final size:42
Alignment explanation
Indices: 2387315--2387398 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
2387305 GTAATTCATA
* * *
2387315 ATGAGTTTATGAATTACCGTATTGGAACTATATGTGTAACCT
1 ATGAGTTTATGAATTACCGTATTGAAACTATATATGCAACCT
*
2387357 ATGAGTTTATGAATTA-CGTATT-AACACTATGTATGCAACCT
1 ATGAGTTTATGAATTACCGTATTGAA-ACTATATATGCAACCT
2387398 A
1 A
2387399 AATAATTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.03
41 20 0.54
42 16 0.43
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (42 bp):
ATGAGTTTATGAATTACCGTATTGAAACTATATATGCAACCT
Found at i:2387425 original size:95 final size:96
Alignment explanation
Indices: 2387261--2387440 Score: 263
Period size: 95 Copynumber: 1.9 Consensus size: 96
2387251 GTAATTCATA
* ** * * *
2387261 ATGAGTTTGTGAATTACCATATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTATG
1 ATGAGTTTATGAATTACCATATTAACACTATGTATGCAACCTAAATAATTCATAATGAGTTTACG
*
2387326 AATTACCGTATTGGAACTATATGTGTAACCT
66 AATTACCATATTGGAACTATATGTGTAACCT
* *
2387357 ATGAGTTTATGAATTA-CGTATTAACACTATGTATGCAACCTAAATAATTCATAATGAGTTTGCG
1 ATGAGTTTATGAATTACCATATTAACACTATGTATGCAACCTAAATAATTCATAATGAGTTTACG
*
2387421 AATTACCATATTGGCACTAT
66 AATTACCATATTGGAACTAT
2387441 GTGCAACCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 59 0.80
96 15 0.20
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (96 bp):
ATGAGTTTATGAATTACCATATTAACACTATGTATGCAACCTAAATAATTCATAATGAGTTTACG
AATTACCATATTGGAACTATATGTGTAACCT
Found at i:2387435 original size:149 final size:148
Alignment explanation
Indices: 2387207--2387502 Score: 452
Period size: 149 Copynumber: 2.0 Consensus size: 148
2387197 GTAATTTATA
* * * ** *
2387207 ATGAGTTTGTGAATTACCGTATTGGAACTATGTGTGCAACCTATGTAATTCATAATGAGTTTGTG
1 ATGAGTTTATGAATTACCGTATTGAAACTATGTATGCAACCTAAATAATTCATAATGAGTTTGCG
2387272 AATTACCATATTGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTAT
66 AATTACCATATTGGCACTA--TGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTAT
* *
2387337 TGGAACTATATGTGTAACCT
129 TAGAACTATATGTGCAACCT
2387357 ATGAGTTTATGAATTA-CGTATT-AACACTATGTATGCAACCTAAATAATTCATAATGAGTTTGC
1 ATGAGTTTATGAATTACCGTATTGAA-ACTATGTATGCAACCTAAATAATTCATAATGAGTTTGC
*
2387420 GAATTACCATATTGGCACTATGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCGTATT
65 GAATTACCATATTGGCACTATGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTATT
* *
2387485 AGCACTATGTGTGCAACC
130 AGAACTATATGTGCAACC
2387503 CACGGAAATT
Statistics
Matches: 134, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
147 58 0.43
148 1 0.01
149 60 0.45
150 15 0.11
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (148 bp):
ATGAGTTTATGAATTACCGTATTGAAACTATGTATGCAACCTAAATAATTCATAATGAGTTTGCG
AATTACCATATTGGCACTATGTGCAACCTAAGTAATTCATAATGAGTTTATGAATTACCGTATTA
GAACTATATGTGCAACCT
Found at i:2387526 original size:55 final size:53
Alignment explanation
Indices: 2387357--2387531 Score: 203
Period size: 52 Copynumber: 3.3 Consensus size: 53
2387347 TGTGTAACCT
* * * *
2387357 ATGAGTTTATGAATTA-CGTATTAACACTATGTATGCAACCTAAATAATTCATA
1 ATGAGTTTGTGAATTACCGTATTAGCACTATGTGTGCAACCTAGA-AATTCATA
* * * *
2387410 ATGAGTTTGCGAATTACCATATTGGCACTA--TGTGCAACCTAAGTAATTCATA
1 ATGAGTTTGTGAATTACCGTATTAGCACTATGTGTGCAACCT-AGAAATTCATA
*
2387462 ATGAGTTTGTGAATTACCGTATTAGCACTATGTGTGCAACCCACGGAAATTCATA
1 ATGAGTTTGTGAATTACCGTATTAGCACTATGTGTGCAACCTA--GAAATTCATA
*
2387517 ATGAGTTTGTAAATT
1 ATGAGTTTGTGAATT
2387532 TCCATATCGC
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
52 44 0.43
53 16 0.16
54 19 0.19
55 23 0.23
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (53 bp):
ATGAGTTTGTGAATTACCGTATTAGCACTATGTGTGCAACCTAGAAATTCATA
Found at i:2392255 original size:54 final size:54
Alignment explanation
Indices: 2392187--2392294 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
2392177 AGTTACTTTG
* * *
2392187 TAACTTGTTGATCGCTCTGTCGTGCATCCTAGTTGTATTGTAGAGAACATGCTT
1 TAACTTGTTGATCGCTATGCCGTACATCCTAGTTGTATTGTAGAGAACATGCTT
* *
2392241 TAACTTGTTGATCGCTATGCCGTACATCCTAGTTGTATTGTGGAGAACTTGCTT
1 TAACTTGTTGATCGCTATGCCGTACATCCTAGTTGTATTGTAGAGAACATGCTT
2392295 GTGATAGTGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (54 bp):
TAACTTGTTGATCGCTATGCCGTACATCCTAGTTGTATTGTAGAGAACATGCTT
Found at i:2399079 original size:22 final size:22
Alignment explanation
Indices: 2399032--2399082 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2399022 CTTTCATGAC
* *
2399032 TTTTTTTTTTTTCGAACAGTTT
1 TTTTTTTTTTTTCGAACAGCTA
* *
2399054 TTTTTTTTTTTTTGAACTGCTA
1 TTTTTTTTTTTTCGAACAGCTA
2399076 TTTTTTT
1 TTTTTTT
2399083 CAACATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (22 bp):
TTTTTTTTTTTTCGAACAGCTA
Found at i:2411170 original size:29 final size:31
Alignment explanation
Indices: 2411122--2411181 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
2411112 AACAACTAAA
* *
2411122 TTTTGGAAATTACATTTTTTA-TCCTCAAAC
1 TTTTGAAAATTACACTTTTTAGTCCTCAAAC
*
2411152 TTTTGAAAATTAC-CTTTTTAGTCCTTAAAC
1 TTTTGAAAATTACACTTTTTAGTCCTCAAAC
2411182 CTTTCCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTTGAAAATTACACTTTTTAGTCCTCAAAC
Found at i:2421715 original size:21 final size:19
Alignment explanation
Indices: 2421683--2421742 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 19
2421673 GGTAGAAATA
* *
2421683 TGATGAATAGTATTGCTAC
1 TGATGAATAGTATCGATAC
2421702 TGATGTAATTAGTATCGATAC
1 TGATG-AA-TAGTATCGATAC
*
2421723 TGATG--GAGTATCGATAC
1 TGATGAATAGTATCGATAC
2421740 TGA
1 TGA
2421743 AAGGAAAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 14 0.39
19 5 0.14
20 2 0.06
21 15 0.42
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (19 bp):
TGATGAATAGTATCGATAC
Found at i:2421754 original size:20 final size:17
Alignment explanation
Indices: 2421712--2421759 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
2421702 TGATGTAATT
*
2421712 AGTATCGATACTGATGG
1 AGTATCGATACTGAAGG
2421729 AGTATCGATACTGAAAGG
1 AGTATCGATACTG-AAGG
2421747 AAAGTATCGATAC
1 --AGTATCGATAC
2421760 CATGTATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 13 0.48
18 3 0.11
20 11 0.41
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (17 bp):
AGTATCGATACTGAAGG
Found at i:2424417 original size:45 final size:45
Alignment explanation
Indices: 2424366--2424648 Score: 431
Period size: 45 Copynumber: 6.3 Consensus size: 45
2424356 GTTTTTATTA
* * *
2424366 CATAAATGAAATGCATAATGGTGCATTAAATGCATGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2424411 CATAAATGAAATGCATAACGGTGCATTAAAGGTATGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
2424456 CATAAATGAAATGCATAATGGTGCATTAAAGGCATGAAATGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
2424501 CATAAATGGAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * *
2424546 CATAAATAAAATGCATAACGGTGCATTAAATGCATGAAATGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * *
2424591 CATAAATGAAATGCATGACAGTGCATTAAAGGCATGAAAGGATGA
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
2424636 CATAAATGGAAAT
1 CATAAAT-GAAAT
2424649 AATGAATAAT
Statistics
Matches: 217, Mismatches: 20, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
45 212 0.98
46 5 0.02
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:2424496 original size:21 final size:21
Alignment explanation
Indices: 2424472--2424539 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
2424462 TGAAATGCAT
2424472 AATGGTGCATTAAAGGCATGA
1 AATGGTGCATTAAAGGCATGA
* *
2424493 AATGATGCCA-TAAATGGAATGCA
1 AATGGTG-CATTAAA-GGCATG-A
*
2424516 TAACGGTGCATTAAAGGCATGA
1 -AATGGTGCATTAAAGGCATGA
2424538 AA
1 AA
2424540 GGATGCCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
21 12 0.32
22 8 0.22
23 8 0.22
24 9 0.24
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (21 bp):
AATGGTGCATTAAAGGCATGA
Found at i:2424578 original size:19 final size:19
Alignment explanation
Indices: 2424510--2424580 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 19
2424500 CCATAAATGG
2424510 AATGCATAACGGTGCATTA
1 AATGCATAACGGTGCATTA
* *
2424529 AAGGCATGAAAGGATGCCATAAATAA
1 AATGCAT-AACGG-TG-CAT---T-A
2424555 AATGCATAACGGTGCATTA
1 AATGCATAACGGTGCATTA
2424574 AATGCAT
1 AATGCAT
2424581 GAAATGATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
19 14 0.34
20 5 0.12
21 2 0.05
22 3 0.07
23 3 0.07
24 2 0.05
25 5 0.12
26 7 0.17
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (19 bp):
AATGCATAACGGTGCATTA
Found at i:2457239 original size:77 final size:79
Alignment explanation
Indices: 2457136--2457288 Score: 188
Period size: 77 Copynumber: 2.0 Consensus size: 79
2457126 AATTAATAAA
**
2457136 AAAATCTTATTTAATTAATTCAAATTAAATAT-ACATT-AAAGACTTATAATCTGAATTACAATC
1 AAAATCTTATTTAATTAATTCAAATTAAATATCA-ATTAAAAGACTTATAATCAAAATTACAATC
*
2457199 -TTTAATTTTTATTT
65 TTTTAATGTTTATTT
* * * * *
2457213 AAAATCTTATTT-ATTTATTCTGAATTAAATATCAATTAAAAGAGTTGTAATCAAAATTACATTC
1 AAAATCTTATTTAATTAATTC-AAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATC
2457277 TTTTAATGTTTA
65 TTTTAATGTTTA
2457289 CTTGCTATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
76 7 0.11
77 25 0.39
78 22 0.34
79 10 0.16
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (79 bp):
AAAATCTTATTTAATTAATTCAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCT
TTTAATGTTTATTT
Found at i:2460121 original size:3 final size:3
Alignment explanation
Indices: 2460113--2460183 Score: 97
Period size: 3 Copynumber: 23.7 Consensus size: 3
2460103 TTAATGTATT
* * *
2460113 TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TTA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2460161 TTA TAA TTA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
2460184 TGGGTAAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2460665 original size:113 final size:113
Alignment explanation
Indices: 2460467--2461117 Score: 1112
Period size: 113 Copynumber: 5.8 Consensus size: 113
2460457 TTTCTTTAGA
2460467 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
2460532 TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
2460580 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
2460645 TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
*
2460693 TGATGACTTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
2460758 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
** *
2460806 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
1 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
2460871 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
**
2460919 TGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
2460984 TGAGTTCTTCTCATTATGAA-C-TCGAACTGG-AAAAGATAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACCTTC--TCTGGCAAAA-ATAATCCATCAAG
* * * * *
2461032 TGATAGATTTGA-ACAAAAGGTTGGACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAG
1 TGAT-GAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
2461096 ATGAGTTCTTCTCATTATGAAC
65 ATGAGTTCTTCTCATTATGAAC
2461118 TCGAACTGGT
Statistics
Matches: 517, Mismatches: 16, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
111 2 0.00
112 4 0.01
113 506 0.98
114 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
TGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAG
Found at i:2461622 original size:21 final size:22
Alignment explanation
Indices: 2461557--2461634 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
2461547 GATAAAGCTT
* *
2461557 TCATCTTTGAAA-AAAGAATCTG
1 TCATCTTT-AAAGAGAGAATCTA
* *
2461579 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTAAAGAGAGAATCTA
2461601 TCATCTTTAAAGAGAG-ATCTA
1 TCATCTTTAAAGAGAGAATCTA
*
2461622 TCATCTTTGAAGA
1 TCATCTTTAAAGA
2461635 ATGTAGATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
21 20 0.41
22 29 0.59
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (22 bp):
TCATCTTTAAAGAGAGAATCTA
Found at i:2464339 original size:60 final size:60
Alignment explanation
Indices: 2464246--2464426 Score: 344
Period size: 60 Copynumber: 3.0 Consensus size: 60
2464236 GATGATCATG
2464246 CAGTTCATCTTTCAATTCCAATGATTGATTTTGGAGTTCATACCGAATCAGATCAGATAA
1 CAGTTCATCTTTCAATTCCAATGATTGATTTTGGAGTTCATACCGAATCAGATCAGATAA
2464306 CAGTTCATCTTTCAATTCCAATGATTGATTTTGGAGTTCATACCGAATCAGATCAGATAA
1 CAGTTCATCTTTCAATTCCAATGATTGATTTTGGAGTTCATACCGAATCAGATCAGATAA
* *
2464366 TAGTTCATCTTTCAATTCCAATGATTGATTTTGGAGTTCATACCGAATCCGATCAGATAA
1 CAGTTCATCTTTCAATTCCAATGATTGATTTTGGAGTTCATACCGAATCAGATCAGATAA
2464426 C
1 C
2464427 TCAAAGAACA
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 118 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (60 bp):
CAGTTCATCTTTCAATTCCAATGATTGATTTTGGAGTTCATACCGAATCAGATCAGATAA
Found at i:2464688 original size:83 final size:83
Alignment explanation
Indices: 2464416--2464956 Score: 964
Period size: 83 Copynumber: 6.6 Consensus size: 83
2464406 TACCGAATCC
* * **
2464416 GATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAACACATTCCTC-T-CAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
2464479 ATTGGTTTTACCAAACCA
66 ATTGGTTTTACCAAACCA
* * **
2464497 GATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAACACATTCCTC-T-CAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
2464560 ATTGGTTTTACCAAACCA
66 ATTGGTTTTACCAAACCA
2464578 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
2464643 ATTGGTTTTACCAAACCA
66 ATTGGTTTTACCAAACCA
2464661 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
2464726 ATTGGTTTTACCAAACCA
66 ATTGGTTTTACCAAACCA
2464744 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
2464809 ATTGGTTTTACCAAACCA
66 ATTGGTTTTACCAAACCA
*
2464827 GATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
2464892 ATTGGTTTTACCAAACCA
66 ATTGGTTTTACCAAACCA
*
2464910 GATCAGCTAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
2464957 GCATTTATTC
Statistics
Matches: 451, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
81 128 0.28
82 1 0.00
83 322 0.71
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATG
ATTGGTTTTACCAAACCA
Found at i:2471984 original size:30 final size:32
Alignment explanation
Indices: 2471931--2471989 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
2471921 TGCAAATAAA
*
2471931 ATGAAATATTAATAAGAAAATATATAAATACT
1 ATGAAATATTAATAAGAAAATATAAAAATACT
* *
2471963 ATGAAA-A-TAATAAGTATATATAAAAAT
1 ATGAAATATTAATAAGAAAATATAAAAAT
2471990 TTTGGAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 1 0.04
32 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGAAATATTAATAAGAAAATATAAAAATACT
Found at i:2472981 original size:26 final size:28
Alignment explanation
Indices: 2472952--2473003 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
2472942 ATTAAAAATA
2472952 TAAACT-AGGGATTAAA-ATATTATTAT
1 TAAACTAAGGGATTAAATATATTATTAT
* *
2472978 TAAATTAAGGGATTAAATATGTTATT
1 TAAACTAAGGGATTAAATATATTATT
2473004 TATCCTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 10 0.45
28 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (28 bp):
TAAACTAAGGGATTAAATATATTATTAT
Found at i:2474160 original size:9 final size:8
Alignment explanation
Indices: 2474142--2474190 Score: 50
Period size: 7 Copynumber: 6.2 Consensus size: 8
2474132 TTGTAATTAT
*
2474142 TATTATTA
1 TATTATAA
2474150 T-TTATAA
1 TATTATAA
2474157 TATT-TAA
1 TATTATAA
2474164 TATT-TAA
1 TATTATAA
2474171 TAATTATAA
1 T-ATTATAA
2474180 TAATTATAA
1 T-ATTATAA
2474189 TA
1 TA
2474191 ATGATAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
7 17 0.46
8 7 0.19
9 13 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTATAA
Found at i:2474182 original size:3 final size:3
Alignment explanation
Indices: 2474168--2474220 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
2474158 ATTTAATATT
* * * * *
2474168 TAA TAA TTA TAA TAA TTA TAA TAA TGA TAA TTA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2474216 TAA TA
1 TAA TA
2474221 TGGGTAAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:2474191 original size:9 final size:9
Alignment explanation
Indices: 2474151--2474220 Score: 67
Period size: 9 Copynumber: 7.9 Consensus size: 9
2474141 TTATTATTAT
2474151 TTATAAT-A
1 TTATAATAA
2474159 TT-TAAT-A
1 TTATAATAA
2474166 TT-TAATAA
1 TTATAATAA
2474174 TTATAATAA
1 TTATAATAA
2474183 TTATAATAA
1 TTATAATAA
*
2474192 TGATAATTATAA
1 T--T-ATAATAA
2474204 TTATAATAA
1 TTATAATAA
*
2474213 TAATAATA
1 TTATAATA
2474221 TGGGTAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
7 11 0.20
8 5 0.09
9 29 0.54
10 1 0.02
11 1 0.02
12 7 0.13
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (9 bp):
TTATAATAA
Found at i:2474197 original size:15 final size:15
Alignment explanation
Indices: 2474168--2474219 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
2474158 ATTTAATATT
2474168 TAATAATTATAATAA
1 TAATAATTATAATAA
* * *
2474183 TTATAATAATGATAA
1 TAATAATTATAATAA
*
2474198 TTATAATTATAATAA
1 TAATAATTATAATAA
2474213 TAATAAT
1 TAATAAT
2474220 ATGGGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TAATAATTATAATAA
Found at i:2475398 original size:20 final size:20
Alignment explanation
Indices: 2475390--2475448 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
2475380 AAAAATAAAG
*
2475390 AAAATAAAAATAAATAAAAT
1 AAAATAAAGATAAATAAAAT
*
2475410 AAAATAAAGATGAATAAAAT
1 AAAATAAAGATAAATAAAAT
*
2475430 AAAGATGAAGA-AAATAAAA
1 AAA-ATAAAGATAAATAAAA
2475449 AATAGACGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 28 0.82
21 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (20 bp):
AAAATAAAGATAAATAAAAT
Found at i:2475415 original size:35 final size:35
Alignment explanation
Indices: 2475375--2475448 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
2475365 AAAGGTGATG
*
2475375 AAAATAAAAATAAAGAAAATAAAAATAAATAAAAT
1 AAAATAAAAATAAAGAAAATAAAAATAAAGAAAAT
* * * * *
2475410 AAAATAAAGATGAATAAAATAAAGATGAAGAAAAT
1 AAAATAAAAATAAAGAAAATAAAAATAAAGAAAAT
2475445 AAAA
1 AAAA
2475449 AATAGACGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (35 bp):
AAAATAAAAATAAAGAAAATAAAAATAAAGAAAAT
Found at i:2475438 original size:15 final size:14
Alignment explanation
Indices: 2475374--2475434 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 14
2475364 CAAAGGTGAT
2475374 GAAAATAAAAATAAA
1 GAAAAT-AAAATAAA
2475389 GAAAATAAAAATAAA
1 GAAAAT-AAAATAAA
*
2475404 TAAAATAAAATAAA
1 GAAAATAAAATAAA
*
2475418 GATGAATAAAATAAA
1 GA-AAATAAAATAAA
2475433 GA
1 GA
2475435 TGAAGAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
14 9 0.21
15 33 0.79
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
GAAAATAAAATAAA
Found at i:2475443 original size:15 final size:15
Alignment explanation
Indices: 2475410--2475447 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2475400 TAAATAAAAT
*
2475410 AAAATAAAGATGAAT
1 AAAATAAAGATGAAG
2475425 AAAATAAAGATGAAG
1 AAAATAAAGATGAAG
2475440 AAAATAAA
1 AAAATAAA
2475448 AAATAGACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (15 bp):
AAAATAAAGATGAAG
Found at i:2475448 original size:5 final size:5
Alignment explanation
Indices: 2475375--2475432 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
2475365 AAAGGTGATG
*
2475375 AAAAT AAAA- ATAAAG AAAAT AAAA- ATAAAT AAAAT AAAAT AAAGAT
1 AAAAT AAAAT A-AAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAA-AT
*
2475421 -GAAT AAAAT AAA
1 AAAAT AAAAT AAA
2475433 GATGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
4 4 0.09
5 36 0.82
6 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2475599 original size:7 final size:7
Alignment explanation
Indices: 2475587--2475654 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
2475577 AACAAATATA
2475587 AATAAAT
1 AATAAAT
2475594 AATAAAT
1 AATAAAT
* *
2475601 AAAAAAG
1 AATAAAT
*
2475608 GATAAAT
1 AATAAAT
2475615 AA-AGAA-
1 AATA-AAT
2475621 AATAAA-
1 AATAAAT
2475627 AAT-AA-
1 AATAAAT
*
2475632 AAGAAAT
1 AATAAAT
2475639 AATAAAT
1 AATAAAT
2475646 AATAAAT
1 AATAAAT
2475653 AA
1 AA
2475655 AACGAGAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
5 4 0.08
6 10 0.20
7 35 0.71
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (7 bp):
AATAAAT
Found at i:2475634 original size:16 final size:16
Alignment explanation
Indices: 2475519--2475647 Score: 69
Period size: 15 Copynumber: 8.4 Consensus size: 16
2475509 AAGATGGAGA
*
2475519 AAATGAAAGAAATAA-
1 AAATAAAAGAAATAAT
* *
2475534 AAA-CAAAGACA-AAT
1 AAATAAAAGAAATAAT
* *
2475548 ATATAAAAAAACATAAT
1 AAATAAAAGAA-ATAAT
* *
2475565 AAA-ACAAGATAA-AAC
1 AAATAAAAGA-AATAAT
*
2475580 AAATATAAATAAATAAT
1 AAATA-AAAGAAATAAT
**
2475597 AAAT-AAA-AAAGGAT
1 AAATAAAAGAAATAAT
2475611 AAAT-AAAGAAAATAA-
1 AAATAAAAG-AAATAAT
2475626 AAATAAAAGAAATAAT
1 AAATAAAAGAAATAAT
2475642 AAATAA
1 AAATAA
2475648 TAAATAAAAC
Statistics
Matches: 85, Mismatches: 17, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
13 2 0.02
14 20 0.24
15 25 0.29
16 23 0.27
17 15 0.18
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (16 bp):
AAATAAAAGAAATAAT
Found at i:2475682 original size:2 final size:2
Alignment explanation
Indices: 2475677--2475716 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2475667 GGATAAACAA
2475677 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2475717 TAGTATAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2475825 original size:14 final size:14
Alignment explanation
Indices: 2475753--2475825 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 14
2475743 TTATATATAT
* *
2475753 ATAATAAAATATTA
1 ATAAAAAAATAGTA
*
2475767 ATAAAAATATAGTA
1 ATAAAAAAATAGTA
*
2475781 AGAAAAAAATAAGATAAA
1 ATAAAAAAAT-AG-T--A
2475799 ATAAATAAGAATAGTA
1 ATAAA-AA-AATAGTA
2475815 ATAAAAAAATA
1 ATAAAAAAATA
2475826 AAAAGTATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
14 23 0.49
15 4 0.09
16 7 0.15
18 6 0.13
19 4 0.09
20 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (14 bp):
ATAAAAAAATAGTA
Done.