Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_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: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 18
Found at i:1630769 original size:18 final size:18
Alignment explanation
Indices: 1630746--1630781 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1630736 AAGCCGGTTG
1630746 TGATTGGGATTTTGATTT
1 TGATTGGGATTTTGATTT
*
1630764 TGATTGTGATTTTGATTT
1 TGATTGGGATTTTGATTT
1630782 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (18 bp):
TGATTGGGATTTTGATTT
Found at i:1633077 original size:24 final size:24
Alignment explanation
Indices: 1633050--1633095 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1633040 ATCATCAAAA
1633050 TCCGAGTATTGACCAAGATCAACG
1 TCCGAGTATTGACCAAGATCAACG
*
1633074 TCCGGGTATTGACCAAGATCAA
1 TCCGAGTATTGACCAAGATCAA
1633096 ATTTCGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAACG
Found at i:1633913 original size:22 final size:22
Alignment explanation
Indices: 1633884--1633935 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1633874 ATAAAGATTG
1633884 GGAA-GGATGTCGTTGGATATA
1 GGAACGGATGTCGTTGGATATA
1633905 GGAACGGATGTCGTTGGATATA
1 GGAACGGATGTCGTTGGATATA
1633927 GGAACGGAT
1 GGAACGGAT
1633936 TTCGCCGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.29, C:0.08, G:0.38, T:0.25
Consensus pattern (22 bp):
GGAACGGATGTCGTTGGATATA
Found at i:1634153 original size:69 final size:69
Alignment explanation
Indices: 1634039--1634176 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
1634029 ACATTTGTGT
* *
1634039 TGCGAAACTAAAACCTGTTGCGAAATTAAAATTCGTTTTGTGAATTCGAAAATCGAGTTGCTACA
1 TGCGAAACTAAAACCTGTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCTACA
1634104 ACAA
66 ACAA
1634108 TGCGAAACTAAAACCTGTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCTACA
1 TGCGAAACTAAAACCTGTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCTACA
1634173 ACAA
66 ACAA
1634177 AATTCGAGTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (69 bp):
TGCGAAACTAAAACCTGTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCTACA
ACAA
Found at i:1634167 original size:20 final size:20
Alignment explanation
Indices: 1634144--1634243 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
1634134 TAAAATTCGT
1634144 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
* *
1634164 GTTGCTACA-AC-AAAATTCGA
1 GTTGCGA-ATTCGAAAA-TCGA
*
1634184 GTTACGAATTC-AGAAATCGA
1 GTTGCGAATTCGA-AAATCGA
* *
1634204 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTCGAAAATCGA
*
1634223 GTGTAGCGAATTTGAAAATCG
1 GT-T-GCGAATTCGAAAATCG
1634244 CAACGCGATT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
19 8 0.13
20 36 0.57
21 19 0.30
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:1634220 original size:40 final size:39
Alignment explanation
Indices: 1634124--1634243 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 39
1634114 ACTAAAACCT
* *
1634124 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCG-AATTAAAATTCGAGTTACGAATTCGAAAATCGA
* **
1634164 GTTGCTACAACAAAATTCGAGTTACGAATTC-AGAAATCGA
1 GTTGCGA-ATTAAAATTCGAGTTACGAATTCGA-AAATCGA
* *
1634204 GTTGCGAATTTGAAATTC-AGTGTAGCGAATTTGAAAATCG
1 GTTGCGAA-TTAAAATTCGAGT-TA-CGAATTCGAAAATCG
1634244 CAACGCGATT
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
39 6 0.09
40 45 0.70
41 12 0.19
42 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (39 bp):
GTTGCGAATTAAAATTCGAGTTACGAATTCGAAAATCGA
Found at i:1634264 original size:20 final size:20
Alignment explanation
Indices: 1634248--1634331 Score: 168
Period size: 20 Copynumber: 4.2 Consensus size: 20
1634238 AAATCGCAAC
1634248 GCGATTTACAGATTCGCGTT
1 GCGATTTACAGATTCGCGTT
1634268 GCGATTTACAGATTCGCGTT
1 GCGATTTACAGATTCGCGTT
1634288 GCGATTTACAGATTCGCGTT
1 GCGATTTACAGATTCGCGTT
1634308 GCGATTTACAGATTCGCGTT
1 GCGATTTACAGATTCGCGTT
1634328 GCGA
1 GCGA
1634332 ATTTGGAAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (20 bp):
GCGATTTACAGATTCGCGTT
Found at i:1636612 original size:16 final size:16
Alignment explanation
Indices: 1636588--1636632 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
1636578 CTCGATGAAT
1636588 ATAACAATT-TTTTAATA
1 ATAA-AATTATTTTAA-A
1636605 ATAAAATTATTTTAAA
1 ATAAAATTATTTTAAA
1636621 ATAAAAATTATT
1 AT-AAAATTATT
1636633 AGACTCGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAATTATTTTAAA
Found at i:1637756 original size:23 final size:23
Alignment explanation
Indices: 1637730--1637775 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1637720 AATTGTTTAG
1637730 TTTTACCAATAATAACATGAACC
1 TTTTACCAATAATAACATGAACC
1637753 TTTTACCAATAATAACATGAACC
1 TTTTACCAATAATAACATGAACC
1637776 AATTAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (23 bp):
TTTTACCAATAATAACATGAACC
Found at i:1641548 original size:6 final size:6
Alignment explanation
Indices: 1641537--1641573 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
1641527 AAAATATAAA
1641537 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT A
1641574 TTCTTGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:1642476 original size:14 final size:14
Alignment explanation
Indices: 1642433--1642479 Score: 67
Period size: 14 Copynumber: 3.2 Consensus size: 14
1642423 TTAATAAGTA
*
1642433 AACGAACATAAACAA
1 AACGAACATAAAC-G
1642448 ACACGAACATAAACG
1 A-ACGAACATAAACG
1642463 AACGAACATAAACG
1 AACGAACATAAACG
1642477 AAC
1 AAC
1642480 ATAAACGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.53
15 2 0.07
16 12 0.40
ACGTcount: A:0.60, C:0.23, G:0.11, T:0.06
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:1643573 original size:14 final size:14
Alignment explanation
Indices: 1643554--1643602 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
1643544 GTTAAACATA
1643554 AACGAACATAACCG
1 AACGAACATAACCG
1643568 AACGAACAT-A---
1 AACGAACATAACCG
*
1643578 AACAAACATAACCG
1 AACGAACATAACCG
1643592 AACGAACATAA
1 AACGAACATAA
1643603 ATGAACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 8 0.28
11 1 0.03
13 1 0.03
14 19 0.66
ACGTcount: A:0.57, C:0.24, G:0.10, T:0.08
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:1643580 original size:24 final size:24
Alignment explanation
Indices: 1643548--1643619 Score: 126
Period size: 24 Copynumber: 3.0 Consensus size: 24
1643538 GATTGGGTTA
1643548 AACATAAACGAACATAACCGAACG
1 AACATAAACGAACATAACCGAACG
*
1643572 AACATAAACAAACATAACCGAACG
1 AACATAAACGAACATAACCGAACG
*
1643596 AACATAAATGAACATAACCGAACG
1 AACATAAACGAACATAACCGAACG
1643620 TTCATGAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.56, C:0.24, G:0.11, T:0.10
Consensus pattern (24 bp):
AACATAAACGAACATAACCGAACG
Found at i:1643608 original size:14 final size:14
Alignment explanation
Indices: 1643554--1643608 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
1643544 GTTAAACATA
*
1643554 AACGAACATAACCG
1 AACGAACATAAACG
1643568 AACGAACATAAAC-
1 AACGAACATAAACG
*
1643581 -A--AACATAACCG
1 AACGAACATAAACG
*
1643592 AACGAACATAAATG
1 AACGAACATAAACG
1643606 AAC
1 AAC
1643609 ATAACCGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
10 8 0.24
12 2 0.06
14 23 0.70
ACGTcount: A:0.56, C:0.24, G:0.11, T:0.09
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:1653300 original size:8 final size:7
Alignment explanation
Indices: 1653260--1653305 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
1653250 TTAAGATAAA
1653260 AAAAATG
1 AAAAATG
1653267 AAAAATG
1 AAAAATG
1653274 AAAAATG
1 AAAAATG
1653281 AAAAAATG
1 -AAAAATG
*
1653289 AAATA-G
1 AAAAATG
1653295 AAAAATAG
1 AAAAAT-G
1653303 AAA
1 AAA
1653306 TGGAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 5 0.15
7 18 0.53
8 11 0.32
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:1653306 original size:14 final size:13
Alignment explanation
Indices: 1653262--1653313 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
1653252 AAGATAAAAA
1653262 AAAT-GAAAAATG
1 AAATAGAAAAATG
*
1653274 AAAAATGAAAAAATG
1 AAATA-G-AAAAATG
1653289 AAATAGAAAAATAG
1 AAATAGAAAAAT-G
*
1653303 AAATGGAAAAA
1 AAATAGAAAAA
1653314 ATAAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.09
13 6 0.18
14 13 0.39
15 11 0.33
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.13
Consensus pattern (13 bp):
AAATAGAAAAATG
Found at i:1653332 original size:11 final size:10
Alignment explanation
Indices: 1653309--1653355 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 10
1653299 ATAGAAATGG
*
1653309 AAAAAATAAA
1 AAAAAAGAAA
1653319 AAAAGAAGAAA
1 AAAA-AAGAAA
1653330 AAAAAAGGAAA
1 AAAAAA-GAAA
*
1653341 AAAAAACAAA
1 AAAAAAGAAA
1653351 AAAAA
1 AAAAA
1653356 TAAAAGGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 14 0.42
11 19 0.58
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:1654831 original size:106 final size:104
Alignment explanation
Indices: 1654638--1654842 Score: 324
Period size: 106 Copynumber: 2.0 Consensus size: 104
1654628 GAGTCTTATA
* *
1654638 CAGATGCGATCGTTGAAGATTATTCGAGTCTTATACTCTCTGAGAATAGGGGGCAGACACGATTG
1 CAGACGCGATCGTTGAAGATTATTCGAGTCTTATACTCTCTGAAAATAGGGGGCAGACACGATTG
1654703 ATGAGATTGGGATCTTATACTCTCTGAAGAAATAGGGGG
66 ATGAGATTGGGATCTTATACTCTCTGAAGAAATAGGGGG
* *
1654742 CAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGAT
1 CAGACGCGATCGTTGAAGATTATTCGAGTCTTATACTCTCTG-A-AAATAGGGGGCAGACACGAT
1654807 TG-TGAAGATTGTGG-TCTTATACTCTCTGAAGAAATA
64 TGATG-AGATTG-GGATCTTATACTCTCTGAAGAAATA
1654843 CGACGATCGT
Statistics
Matches: 93, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
104 40 0.43
105 3 0.03
106 48 0.52
107 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (104 bp):
CAGACGCGATCGTTGAAGATTATTCGAGTCTTATACTCTCTGAAAATAGGGGGCAGACACGATTG
ATGAGATTGGGATCTTATACTCTCTGAAGAAATAGGGGG
Found at i:1654842 original size:51 final size:52
Alignment explanation
Indices: 1654665--1654842 Score: 249
Period size: 51 Copynumber: 3.4 Consensus size: 52
1654655 GATTATTCGA
*
1654665 GTCTTATACTCTCTG-AG-AATAGGGGGCAGACACGATTGATG-AGATTG-G
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
* *
1654713 GATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
1 G-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-G
*
1654768 AGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTG-TGAAGATTGTG
1 -GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
1654820 GTCTTATACTCTCTGAAGAAATA
1 GTCTTATACTCTCTGAAGAAATA
1654843 CGACGATCGT
Statistics
Matches: 116, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
48 1 0.01
49 14 0.12
50 2 0.02
51 43 0.37
52 7 0.06
53 1 0.01
54 9 0.08
55 38 0.33
56 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (52 bp):
GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTG
Found at i:1655000 original size:50 final size:50
Alignment explanation
Indices: 1654857--1655362 Score: 613
Period size: 50 Copynumber: 10.5 Consensus size: 50
1654847 GATCGTTGAG
*
1654857 ATTGTTCGAG-TCTA-TCCTGAAGAAAATTGGGCAGACCG-AGGAAG---
1 ATTGTTCGAGTTCTAGTCCTGAAGAAAATTGGGCAGTCCGTAGGAAGATT
* * *
1654901 ATTGTTCGAG-TCTATTCCTG-AG-AAATTGGGCA-TTC-TTGTG-AGATT
1 ATTGTTCGAGTTCTAGTCCTGAAGAAAATTGGGCAGTCCGTAG-GAAGATT
1654946 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCCGTAGG-AGATT
1 ATTGTTCGAGTTCTAGT-CCTGAAGAAAATTGGGCAGTCCGTAGGAAGATT
* *
1654996 ATTGTTCGAGTTCTA-TCCTG-AG-AAATTGGACAGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTAGTCCTGAAGAAAATTGGGCAG-TCCGTAGGAAGATT
* *
1655044 ATTGTTCGAGTTATAGTCCCT-AAGAAAA-TGGGCAGACCGTA-GAAGA-T
1 ATTGTTCGAGTTCTAGT-CCTGAAGAAAATTGGGCAGTCCGTAGGAAGATT
1655091 -TT-TTCGAGTT-TAGTCCTGAAGAAAATTGGGCAGTCCGTAGGAAGATT
1 ATTGTTCGAGTTCTAGTCCTGAAGAAAATTGGGCAGTCCGTAGGAAGATT
*
1655138 ATTGTTCGAGTTCTAGTCCCT-AAGAAAATTGGGCAGACCGTAGGAAGATT
1 ATTGTTCGAGTTCTAGT-CCTGAAGAAAATTGGGCAGTCCGTAGGAAGATT
1655188 -TT-TTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
1 ATTGTTCGAGTTCTAGT-CCTGAAGAAAATTGGGCAGTC-CGTAGGAAGATT
*
1655238 ATTGTTCGAGTTCTAGTCCT-AAGAAAATT-GGCA--ACGTAGGAAGATT
1 ATTGTTCGAGTTCTAGTCCTGAAGAAAATTGGGCAGTCCGTAGGAAGATT
1655284 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
1 ATTGTTCGAGTTCTAGT-CCTGAAGAAAATTGGGCAGTC-CGTAGGAAGATT
* *
1655336 ATCGTTCGAGTTCTACTCCTGAAGAAA
1 ATTGTTCGAGTTCTAGTCCTGAAGAAA
1655363 TAGAGAGCGA
Statistics
Matches: 408, Mismatches: 18, Indels: 65
0.83 0.04 0.13
Matches are distributed among these distances:
42 4 0.01
43 14 0.03
44 27 0.07
45 35 0.09
46 51 0.12
47 18 0.04
48 58 0.14
49 51 0.12
50 87 0.21
51 23 0.06
52 40 0.10
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
ATTGTTCGAGTTCTAGTCCTGAAGAAAATTGGGCAGTCCGTAGGAAGATT
Found at i:1655064 original size:98 final size:99
Alignment explanation
Indices: 1654857--1655362 Score: 639
Period size: 98 Copynumber: 5.3 Consensus size: 99
1654847 GATCGTTGAG
* *
1654857 ATTGTTCGAG-TCTA-TCCTGAAGAAAATTGGGCAGACCG-AGGA-A-GATTGTTCGAG-TCTAT
1 ATTGTTCGAGTTCTAGTCCT-AAGAAAATTGGGCAGACCGTAGGAGATTATTGTTCGAGTTCTAG
* *
1654916 TCCTG-AG-AAATTGGGCATTCTTGT--G-AGATT
65 TCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
*
1654946 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCCGTAGGAGATTATTGTTCGAGTTCTA
1 ATTGTTCGAGTTCTAGT-CCT-AAGAAAATTGGGCAGACCGTAGGAGATTATTGTTCGAGTTCTA
* * *
1655011 -TCCTG-AG-AAATTGGACAGACCCGTAGGAAGATT
64 GTCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
* *
1655044 ATTGTTCGAGTTATAGTCCCTAAGAAAA-TGGGCAGACCGTAGAAGA-T-TT-TTCGAGTT-TAG
1 ATTGTTCGAGTTCTAGT-CCTAAGAAAATTGGGCAGACCGTAGGAGATTATTGTTCGAGTTCTAG
1655104 TCCTGAAGAAAATTGGGCAGTC-CGTAGGAAGATT
65 TCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
1655138 ATTGTTCGAGTTCTAGTCCCTAAGAAAATTGGGCAGACCGTAGGAAGATT-TT-TTCGAGTTCTA
1 ATTGTTCGAGTTCTAGT-CCTAAGAAAATTGGGCAGACCGTAGG-AGATTATTGTTCGAGTTCTA
1655201 GTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
64 GT-CCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
1655238 ATTGTTCGAGTTCTAGTCCTAAGAAAATT-GGCA-A-CGTAGGAAGATTATTGTTCGAGTTCTAG
1 ATTGTTCGAGTTCTAGTCCTAAGAAAATTGGGCAGACCGTAGG-AGATTATTGTTCGAGTTCTAG
1655300 TCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
65 T-CCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
* *
1655336 ATCGTTCGAGTTCTACTCCTGAAGAAA
1 ATTGTTCGAGTTCTAGTCCT-AAGAAA
1655363 TAGAGAGCGA
Statistics
Matches: 379, Mismatches: 16, Indels: 34
0.88 0.04 0.08
Matches are distributed among these distances:
89 10 0.03
90 4 0.01
91 1 0.00
92 24 0.06
93 17 0.04
94 44 0.12
95 55 0.15
96 35 0.09
97 22 0.06
98 99 0.26
99 39 0.10
100 29 0.08
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (99 bp):
ATTGTTCGAGTTCTAGTCCTAAGAAAATTGGGCAGACCGTAGGAGATTATTGTTCGAGTTCTAGT
CCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATT
Found at i:1655199 original size:240 final size:236
Alignment explanation
Indices: 1654855--1655362 Score: 660
Period size: 240 Copynumber: 2.1 Consensus size: 236
1654845 ACGATCGTTG
* * *
1654855 AGATTGTTCGAGTCTATCCTGAAGAAAATTGGGCAGACCGAGGAAGATTGTTCGAGTCTATTCCT
1 AGATTTTTCGAGTTTATCCTGAAGAAAATTGGGCAGACCGAGGAAGATTGTTCGAGTCTATCCCT
* ** *
1654920 GAGAAATTGGGCATTCTTGTGAGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTC
66 AAGAAATTGGGCAACCTAGTGAGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTC
*
1654985 -CGTAGG-AGATTATTGTTCGAGTTCTA-TCCTGAG-AAATTGGACAGACCCGTAGGAAGATTAT
131 TCGTAGGAAGATTATTGTTCGAGTTCTAGTCCTAAGAAAATTGG-CA-A--CGTAGGAAGATTAT
1655046 TGTTCGAGTTATAGTCCCT-AAGAAAA-TGGGCAGAC-CGTA-GA
192 TGTTCGAGTTATAGTCCCTGAAGAAAATTGGGCAGACTCGTAGGA
*
1655087 AGATTTTTCGAGTTTAGTCCTGAAGAAAATTGGGCAGTCCGTAGGAAGATTATTGTTCGAGTTCT
1 AGATTTTTCGAGTTTA-TCCTGAAGAAAATTGGGCAGACCG-AGGAAG---ATTGTTCGAG-TCT
1655152 AGTCCCTAAGAAAATTGGGCAGACCGTAG-GAAGATT-TT-TTCGAGTTCTAGTCCCTGAAGAAA
60 A-TCCCTAAG-AAATTGGGCA-ACC-TAGTG-AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAA
1655214 ATTGGGCAGTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCCTAAGAAAATTGGCAACGTAGGA
120 ATTGGGCAGTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCCTAAGAAAATTGGCAACGTAGGA
* *
1655279 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
185 AGATTATTGTTCGAGTTATAGTCCCTGAAGAAAATTGGGCAGACTCGTAGGA
1655331 AGATTATCGTTCGAGTTCTACTCCTGAAGAAA
1 AGATT-T--TTCGAGTT-TA-TCCTGAAGAAA
1655363 TAGAGAGCGA
Statistics
Matches: 241, Mismatches: 12, Indels: 30
0.85 0.04 0.11
Matches are distributed among these distances:
232 14 0.06
233 23 0.10
234 6 0.02
237 10 0.04
238 4 0.02
239 6 0.02
240 77 0.32
241 17 0.07
242 36 0.15
243 12 0.05
244 14 0.06
245 1 0.00
247 8 0.03
248 13 0.05
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (236 bp):
AGATTTTTCGAGTTTATCCTGAAGAAAATTGGGCAGACCGAGGAAGATTGTTCGAGTCTATCCCT
AAGAAATTGGGCAACCTAGTGAGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTC
TCGTAGGAAGATTATTGTTCGAGTTCTAGTCCTAAGAAAATTGGCAACGTAGGAAGATTATTGTT
CGAGTTATAGTCCCTGAAGAAAATTGGGCAGACTCGTAGGA
Found at i:1655632 original size:14 final size:13
Alignment explanation
Indices: 1655604--1655668 Score: 62
Period size: 14 Copynumber: 4.9 Consensus size: 13
1655594 TGGTTATAAA
*
1655604 TATTATATTAAAT
1 TATTATATTATAT
1655617 TATTACTATTATAT
1 TATTA-TATTATAT
1655631 TA-T-TATTATAT
1 TATTATATTATAT
*
1655642 TATTATTATTATAAC
1 TATTA-TATTAT-AT
*
1655657 AATTATATTATA
1 TATTATATTATA
1655669 ATAATTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
11 10 0.23
12 1 0.02
13 7 0.16
14 21 0.48
15 5 0.11
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:1655634 original size:3 final size:3
Alignment explanation
Indices: 1655615--1655684 Score: 56
Period size: 3 Copynumber: 24.3 Consensus size: 3
1655605 ATTATATTAA
* * **
1655615 ATT ATT ACT ATT A-T ATT ATT ATT A-T ATT ATT ATT ATT ATA ACA ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
1655661 A-T ATT ATA ATA ATT ATT AGT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1655685 AATATCATGT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 6 0.11
3 48 0.89
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (3 bp):
ATT
Found at i:1655637 original size:11 final size:11
Alignment explanation
Indices: 1655617--1655650 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
1655607 TATATTAAAT
*
1655617 TATTACTATTA
1 TATTATTATTA
1655628 TATTATTATTA
1 TATTATTATTA
1655639 TATTATTATTA
1 TATTATTATTA
1655650 T
1 T
1655651 TATAACAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTATTA
Found at i:1655669 original size:14 final size:14
Alignment explanation
Indices: 1655643--1655676 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1655633 TTATTATATT
1655643 ATTATTATTATAACA
1 ATTA-TATTATAACA
*
1655658 ATTATATTATAATA
1 ATTATATTATAACA
1655672 ATTAT
1 ATTAT
1655677 TAGTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATATTATAACA
Found at i:1655684 original size:23 final size:23
Alignment explanation
Indices: 1655628--1655684 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
1655618 ATTACTATTA
* * *
1655628 TATTATTATTATATTATTATTAT
1 TATTACTATTATATTATAATAAT
* *
1655651 TATAACAATTATATTATAATAAT
1 TATTACTATTATATTATAATAAT
*
1655674 TATTAGTATTA
1 TATTACTATTA
1655685 AATATCATGT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTACTATTATATTATAATAAT
Found at i:1658564 original size:2 final size:2
Alignment explanation
Indices: 1658557--1658581 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1658547 AAAAAGGAAA
1658557 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1658582 CATCAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1658641 original size:40 final size:42
Alignment explanation
Indices: 1658568--1658651 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
1658558 TATATATATA
*
1658568 TATATATATATATACATCAAAGTATTAATAAAATA-AATAAGC
1 TATATATATATATACAACAAAGTATTAATAAAATAGAA-AAGC
* *
1658610 TATATATATATATACAACGAA-TATTTA-AAAATAGAAAAGC
1 TATATATATATATACAACAAAGTATTAATAAAATAGAAAAGC
1658650 TA
1 TA
1658652 CCCTCTCACT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 12 0.32
41 7 0.18
42 19 0.50
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.32
Consensus pattern (42 bp):
TATATATATATATACAACAAAGTATTAATAAAATAGAAAAGC
Found at i:1658731 original size:41 final size:39
Alignment explanation
Indices: 1658667--1658743 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 39
1658657 TCACTTCACC
* * *
1658667 GAAAGTGGGAGGCTTTAGTTAGAAATAAGACAAAAAGAG
1 GAAAGTGGGAGACTTTAGCTAGAAATAAAACAAAAAGAG
1658706 GAAAGTGGAAGAGACTTTAGCTAGAAATAAAACAAAAA
1 GAAAGTGG--GAGACTTTAGCTAGAAATAAAACAAAAA
1658744 AAATGGGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 8 0.24
41 25 0.76
ACGTcount: A:0.51, C:0.06, G:0.26, T:0.17
Consensus pattern (39 bp):
GAAAGTGGGAGACTTTAGCTAGAAATAAAACAAAAAGAG
Found at i:1658901 original size:2 final size:2
Alignment explanation
Indices: 1658857--1658885 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1658847 AATAAAAAAA
1658857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1658886 AAGTTATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1659063 original size:2 final size:2
Alignment explanation
Indices: 1659056--1659086 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1659046 TATTAAAGAA
1659056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1659087 ATAAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1659178 original size:17 final size:18
Alignment explanation
Indices: 1659145--1659180 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1659135 ATATATACGT
*
1659145 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
1659163 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
1659180 A
1 A
1659181 AATATACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:1659597 original size:35 final size:35
Alignment explanation
Indices: 1659558--1659629 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
1659548 TAAAAAAACC
1659558 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1659593 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1659628 CT
1 CT
1659630 TCTTTTTGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:1660299 original size:106 final size:106
Alignment explanation
Indices: 1660107--1660950 Score: 1052
Period size: 106 Copynumber: 8.0 Consensus size: 106
1660097 TGTATTGTTC
* * * *
1660107 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGAAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * ** *
1660172 GCCAACCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
** * * * *
1660213 TAAGTCTAATATCCTTCGATGTGAAGTTGAAATTGACCCTGAAATTGGGAAATTGTTTATTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
1660278 ACCAGCCGTCCCTTCGTTGTGAAGTTAAACTTGTGTCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
1660319 CGATTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATCGAGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
1660384 ATCAGCCGTCCCTTCGTTGTCAAGTTGAACTTGTG--GTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* ** * * *
1660423 CGAGTCCAATATCCTTCTATGTGAAGTTGAAATTAACCCTGAAAATAGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
1660488 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
1660529 CGAGTCCAATATCCTTC--------GCT---ATTGGCTCTGAAATTGGGAGATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1660583 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
1660624 TGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
1660689 ACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTC-
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
1660729 CTGAGTCCAACATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGAGAAACTGTTTGTTGTC
1 C-GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* * * *
1660794 AACCAACCATCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCC
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * * *
1660836 CGAGTCCAATATCCTTCGCTGTAAAATTAAAATTGGCTCTGAATGAAACT-GAAAAGTGGTTTGT
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTC----TGAAATTGGGAAA-TTGTTTGT
1660900 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
61 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
1660946 CGAGT
1 CGAGT
1660951 GGCGCGATAT
Statistics
Matches: 634, Mismatches: 84, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
95 84 0.13
98 2 0.00
103 2 0.00
104 91 0.14
106 393 0.62
107 1 0.00
109 3 0.00
110 58 0.09
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:1668965 original size:13 final size:13
Alignment explanation
Indices: 1668947--1668972 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1668937 CTACTTAAAA
1668947 TAGGGTTTAGAGC
1 TAGGGTTTAGAGC
1668960 TAGGGTTTAGAGC
1 TAGGGTTTAGAGC
1668973 CTTAGATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.31
Consensus pattern (13 bp):
TAGGGTTTAGAGC
Found at i:1669626 original size:2 final size:2
Alignment explanation
Indices: 1669619--1669669 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1669609 AAAAAGGAAA
1669619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1669661 AT AT AT AT A
1 AT AT AT AT A
1669670 CATCAAAGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1669730 original size:32 final size:35
Alignment explanation
Indices: 1669662--1669731 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 35
1669652 TATATATATA
1669662 TATATATACATCAAAGTATTAATAAAATAAATAAGC
1 TATATATACATCAAAGTATT-ATAAAATAAATAAGC
1669698 TATATATACA-CAAA-TATT-TAAAATAGAA-AAGC
1 TATATATACATCAAAGTATTATAAAATA-AATAAGC
1669730 TA
1 TA
1669732 CCCTCTCACT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
32 13 0.39
33 2 0.06
34 4 0.12
35 4 0.12
36 10 0.30
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.30
Consensus pattern (35 bp):
TATATATACATCAAAGTATTATAAAATAAATAAGC
Found at i:1669942 original size:23 final size:23
Alignment explanation
Indices: 1669895--1669942 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1669885 CACAAGATTT
* **
1669895 TAAAAAAATAAAATAATAATGAA
1 TAAAAAAAGAAAATAATAAAAAA
*
1669918 TAAAAAACGAAAATAATAAAAAA
1 TAAAAAAAGAAAATAATAAAAAA
1669941 TA
1 TA
1669943 TATATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (23 bp):
TAAAAAAAGAAAATAATAAAAAA
Found at i:1670246 original size:17 final size:18
Alignment explanation
Indices: 1670213--1670248 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1670203 ATATATATGT
*
1670213 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
1670231 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
1670248 A
1 A
1670249 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:1670665 original size:35 final size:35
Alignment explanation
Indices: 1670626--1670697 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
1670616 CTAAAAAACC
1670626 CTATTTTAAACTAATATTTGAGTCCTAATCCAACT
1 CTATTTTAAACTAATATTTGAGTCCTAATCCAACT
* *
1670661 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAAACTAATATTTGAGTCCTAATCCAACT
1670696 CT
1 CT
1670698 TCTTTTTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (35 bp):
CTATTTTAAACTAATATTTGAGTCCTAATCCAACT
Found at i:1685065 original size:23 final size:20
Alignment explanation
Indices: 1685014--1685073 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 20
1685004 TTTTGGTGCA
*
1685014 GAGGGAATCGA-TCCCCCTT
1 GAGGGAACCGATTCCCCCTT
1685033 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
1685054 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
1685074 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.28
20 6 0.17
21 3 0.08
22 1 0.03
23 16 0.44
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:1689162 original size:219 final size:220
Alignment explanation
Indices: 1688778--1689416 Score: 647
Period size: 219 Copynumber: 2.9 Consensus size: 220
1688768 AAGATGTTTT
*
1688778 TAATGATTTGTGAGAAAAATGAGAAAACGATTTTCAAAGTTT-TTCATTTAATA-TTTTAGAAAA
1 TAAT-ATTTGTGA-AAAAATGAGAAAATGATTTTCAAAGTTTCTT-ATTTAATATTTTTAGAAAA
** * * * * * *
1688841 TG-AAATTTTCGAAAATTAAGAAAACAATTTCCAAATTTTCTTGCCTAATTGATTCTTTTCAAAA
63 TGAAAATTTT-GAAAATTAAGAAAATGATTTCTAAAGTTTCTTACCTAGTAGATTATTTTCAAAA
* * * * * *
1688905 TCAGTAAGTCCTTCGAGCCATTAATAAATCTTTCGAGCATGATGATTAAGATCTCTGGGCCATCT
127 TTAGTAAGTTCTTCGAGTCATCAGTAAATCTTTCGAGCATGATGATTAA-ATCT-TGGGTCATCT
*
1688970 ATAAGACCTTT-G-T-TCATGATGCTTTTAA
190 ATAAGACCTTTAGATGGCATGATGCTTTTAA
* *
1688998 TAATATTTGTGAAAAAATGAGAAAATGATTTTCAAAATTTCTTAATTAATATTTTTAGAAAATGA
1 TAATATTTGTGAAAAAATGAGAAAATGATTTTCAAAGTTTCTTATTTAATATTTTTAGAAAATGA
* * *
1689063 AAATTTTGAAAATTAAGAAAATGATTTCTAAAGTTTCTTACTTAGCAGATTAATTTCAAAATTAG
66 AAATTTTGAAAATTAAGAAAATGATTTCTAAAGTTTCTTACCTAGTAGATTATTTTCAAAATTAG
* * * *
1689128 TAAGTTCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTTTTA
131 TAAGTTCTTCGAGTCATCAGTAAATCTTTCGAGCATGATGATTAAATC-TT-GGGTCATCTATAA
*** *
1689193 GTTTTTTGAGCAAGATAGGGCATGATGTTTTTAA
194 GACCTTT-----AGAT--GGCATGATGCTTTTAA
* * * *
1689227 -AGATATTTGCGAAAACAATTAG--AATAATTTTCAAAGTTTCTCATTTAATATTTTTAGAAAAT
1 TA-ATATTTGTGAAAA-AATGAGAAAATGATTTTCAAAGTTTCTTATTTAATATTTTTAGAAAAT
* * * *
1689289 GAAATTTTTTAAAAGT--GAAAATGATTT-TCAAAGTTTCTTACCTAGTAAATTATTTTCAAAAT
64 GAAAATTTTGAAAATTAAGAAAATGATTTCT-AAAGTTTCTTACCTAGTAGATTATTTTCAAAAT
* *
1689351 TAGTAAG-TCATTCGAGTCATCTGTAAACCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCT
128 TAGTAAGTTC-TTCGAGTCATCAGTAAATCTTTCGAGCATGATGATTAAAT-C-TTGGGTCATCT
1689415 AT
190 AT
1689417 CACTCTTTCG
Statistics
Matches: 351, Mismatches: 48, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
218 37 0.11
219 122 0.35
220 11 0.03
225 4 0.01
226 94 0.27
227 3 0.01
228 50 0.14
229 25 0.07
230 5 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (220 bp):
TAATATTTGTGAAAAAATGAGAAAATGATTTTCAAAGTTTCTTATTTAATATTTTTAGAAAATGA
AAATTTTGAAAATTAAGAAAATGATTTCTAAAGTTTCTTACCTAGTAGATTATTTTCAAAATTAG
TAAGTTCTTCGAGTCATCAGTAAATCTTTCGAGCATGATGATTAAATCTTGGGTCATCTATAAGA
CCTTTAGATGGCATGATGCTTTTAA
Found at i:1689349 original size:226 final size:227
Alignment explanation
Indices: 1688984--1689414 Score: 593
Period size: 226 Copynumber: 1.9 Consensus size: 227
1688974 GACCTTTGTT
* * *
1688984 CATGATGCTTTTAATAATATTTGTGAAAAAATGAGAAAATGATTTTCAAAATTTCTTAATTAATA
1 CATGATGCTTTTAATAATATTTGCGAAAAAATGAG-AAATAATTTTCAAAATTTCTCAATTAATA
* * *
1689049 TTTTTAGAAAATGAAAATTTTGAAAATTAAGAAAATGATTTCTAAAGTTTCTTACTTAGCAGATT
65 TTTTTAGAAAATGAAAATTTTGAAAAGT-AGAAAATGATTTCTAAAGTTTCTTACCTAGCAAATT
* **
1689114 AATTTCAAAATTAGTAAGTTC-TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCAT
129 AATTTCAAAATTAGTAAG-TCATTCGAGTCATCAGTAAACCTTTCGAGCATGATGATTAAATCAT
1689178 TCGGGTCATCTTTTAGTTTTTTGAGCAAGATAGGG
193 TCGGGTCATCTTTTAGTTTTTTGAGCAAGATAGGG
* * * *
1689213 CATGATGTTTTTAA-AGATATTTGCGAAAACAATTAG-AATAATTTTCAAAGTTTCTCATTTAAT
1 CATGATGCTTTTAATA-ATATTTGCGAAAA-AATGAGAAATAATTTTCAAAATTTCTCAATTAAT
* * *
1689276 ATTTTTAGAAAATGAAATTTTTTAAAAGT-GAAAATGATTT-TCAAAGTTTCTTACCTAGTAAAT
64 ATTTTTAGAAAATGAAAATTTTGAAAAGTAGAAAATGATTTCT-AAAGTTTCTTACCTAGCAAAT
* * *
1689339 TATTTTCAAAATTAGTAAGTCATTCGAGTCATCTGTAAACCTTTCGAGCATGATGATTAAATCCT
128 TAATTTCAAAATTAGTAAGTCATTCGAGTCATCAGTAAACCTTTCGAGCATGATGATTAAATCAT
*
1689404 TTGGGTCATCT
193 TCGGGTCATCT
1689415 ATCACTCTTT
Statistics
Matches: 178, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
225 3 0.02
226 95 0.53
228 50 0.28
229 25 0.14
230 5 0.03
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.39
Consensus pattern (227 bp):
CATGATGCTTTTAATAATATTTGCGAAAAAATGAGAAATAATTTTCAAAATTTCTCAATTAATAT
TTTTAGAAAATGAAAATTTTGAAAAGTAGAAAATGATTTCTAAAGTTTCTTACCTAGCAAATTAA
TTTCAAAATTAGTAAGTCATTCGAGTCATCAGTAAACCTTTCGAGCATGATGATTAAATCATTCG
GGTCATCTTTTAGTTTTTTGAGCAAGATAGGG
Found at i:1695772 original size:18 final size:18
Alignment explanation
Indices: 1695749--1695790 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1695739 TAAACAACTG
*
1695749 CACCTTCCTCTCATACAT
1 CACCTTCCTCTCATACAA
1695767 CACCTTCCTCTCATACAA
1 CACCTTCCTCTCATACAA
1695785 CACCTT
1 CACCTT
1695791 AATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.31
Consensus pattern (18 bp):
CACCTTCCTCTCATACAA
Found at i:1708660 original size:31 final size:31
Alignment explanation
Indices: 1708625--1708692 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
1708615 AAAATATTTT
*
1708625 AAATTTGTGATGGAATATATGGACC-CATCAC
1 AAATTTGTGATGGAACATATGGACCTC-TCAC
*
1708656 AAATTTGTGATGGAACATGTGGACCTCTCAC
1 AAATTTGTGATGGAACATATGGACCTCTCAC
1708687 AAATTT
1 AAATTT
1708693 CTGACAGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (31 bp):
AAATTTGTGATGGAACATATGGACCTCTCAC
Found at i:1708748 original size:31 final size:31
Alignment explanation
Indices: 1708683--1708751 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
1708673 TGTGGACCTC
* * *
1708683 TCACAAATTTCTGACAGATTCACCTATTCTG
1 TCACAAATTTCTGACAGATCCACATATTCCG
* *
1708714 TCACAAATTTCTGACAGGTCCACATGTTCCG
1 TCACAAATTTCTGACAGATCCACATATTCCG
1708745 TCACAAA
1 TCACAAA
1708752 GTTTAGATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (31 bp):
TCACAAATTTCTGACAGATCCACATATTCCG
Found at i:1709914 original size:167 final size:168
Alignment explanation
Indices: 1709678--1710338 Score: 839
Period size: 167 Copynumber: 4.0 Consensus size: 168
1709668 ATACTAACGG
* * * * * * * *
1709678 ATTTTCGTCAGTAAATTTCTGACGGACTAGTTTATGTCCTTGGAAATGTTGGTTTCGATCAGAGT
1 ATTTCCGTCAGTATATTTTTGACGAACTAGTTTATGTCCTCGAAAATATTGGTTTCGATCAGCGT
* * * *
1709743 TTTACTGACTACTCTCTTCAATCATAAATTCCATCATAAATTTTCTTAGAAATTACATCAACAAT
66 TTTACTGACTACTCTCTTCAATCATAAATTCCGTCATAAATTCTCTCAAAAATTACATCAACAAT
*
1709808 TACATATTTTTTTGTAGTGTGTGGCCACAATGACTTTT
131 TACATATTTTTTTGTAGTGCGTGGCCACAATGACTTTT
* *
1709846 ATTTCCGTCA-TATATTTTTGACGAACTAGTTTATGTCCTCGGAAATATTGGTTTCAATCAGCGT
1 ATTTCCGTCAGTATATTTTTGACGAACTAGTTTATGTCCTCGAAAATATTGGTTTCGATCAGCGT
*
1709910 TTTACTGACTACTCTCTTCAATCATAAATTCCGTCATAAATTCTCTCAAAGATTAC-TCAACAAT
66 TTTACTGACTACTCTCTTCAATCATAAATTCCGTCATAAATTCTCTCAAAAATTACATCAACAAT
* * * *
1709974 TATACATTTTTTTGTAGTGAGTGGCCTCAATGACTTTT
131 TACATATTTTTTTGTAGTGCGTGGCCACAATGACTTTT
* * * * *
1710012 ATTT-CGTCAGTATA-TTTTGACGGACTATTTTATGTCCACGAAAATGTTGGTTTCGATTAGCGT
1 ATTTCCGTCAGTATATTTTTGACGAACTAGTTTATGTCCTCGAAAATATTGGTTTCGATCAGCGT
* ** *
1710075 TTTACTGACTACTCTATTCAATCATAAATTTTGTCATAAAATCTCTCAAAAATTACATCAACAAT
66 TTTACTGACTACTCTCTTCAATCATAAATTCCGTCATAAATTCTCTCAAAAATTACATCAACAA-
* *
1710140 TTTACA-ATTTTTTTGTAATGCGTGGCCACAATAACTTTT
130 -TTACATATTTTTTTGTAGTGCGTGGCCACAATGACTTTT
* * * * ** * *
1710179 ATTTCCGTCAATATATTTTTGATGAACTAGTTTATGTCCTCAAAAACATAAGTTTCGATCAACAT
1 ATTTCCGTCAGTATATTTTTGACGAACTAGTTTATGTCCTCGAAAATATTGGTTTCGATCAGCGT
* * * * * *
1710244 TTTACTGACTACTCTCTTCCAGCAGAAATTCCGTCATAAATTTTCTCAAAAATTCCATCAGCAAT
66 TTTACTGACTACTCTCTTCAATCATAAATTCCGTCATAAATTCTCTCAAAAATTACATCAACAAT
*
1710309 TACATAATTTTTTT-TAGTGCGTCGCCACAA
131 TACAT-ATTTTTTTGTAGTGCGTGGCCACAA
1710339 CGACAGTTAT
Statistics
Matches: 426, Mismatches: 59, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
165 98 0.23
166 57 0.13
167 136 0.32
168 36 0.08
169 99 0.23
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (168 bp):
ATTTCCGTCAGTATATTTTTGACGAACTAGTTTATGTCCTCGAAAATATTGGTTTCGATCAGCGT
TTTACTGACTACTCTCTTCAATCATAAATTCCGTCATAAATTCTCTCAAAAATTACATCAACAAT
TACATATTTTTTTGTAGTGCGTGGCCACAATGACTTTT
Found at i:1712280 original size:32 final size:33
Alignment explanation
Indices: 1712224--1712286 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1712214 TCTAAACTCA
*
1712224 ACTTTTAGATTTTTTAAATATGAAATTAAACCC
1 ACTTTTAGAATTTTTAAATATGAAATTAAACCC
*
1712257 ACTTTTA-AATTTTTAAATTTGAAATTAAAC
1 ACTTTTAGAATTTTTAAATATGAAATTAAAC
1712287 TCGACATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (33 bp):
ACTTTTAGAATTTTTAAATATGAAATTAAACCC
Found at i:1716207 original size:53 final size:53
Alignment explanation
Indices: 1716150--1716254 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
1716140 ACCTTGAAAT
** *
1716150 ATCGAATGCCAGATTGGTATCGGTACTTTGAGGAGGTATCGATACCCCTGAAC
1 ATCGAATGCCAGATTGGTATCGGTACCATGAGGAGGTATCCATACCCCTGAAC
* **
1716203 ATCGAATGCTATTTTGGTATCGGTACCATGAGGAGGTATCCATACCCCTGAA
1 ATCGAATGCCAGATTGGTATCGGTACCATGAGGAGGTATCCATACCCCTGAA
1716255 GGGAAGTATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (53 bp):
ATCGAATGCCAGATTGGTATCGGTACCATGAGGAGGTATCCATACCCCTGAAC
Found at i:1716863 original size:21 final size:22
Alignment explanation
Indices: 1716801--1716926 Score: 93
Period size: 21 Copynumber: 5.8 Consensus size: 22
1716791 TCGAGGGTCT
* * *
1716801 TATGTGGTCCTTCGG-GAAAAA
1 TATGTGGTACTTCGGTGCAAAC
* *
1716822 TATGTGGTCCTTCAGG-ACAAA-
1 TATGTGGTACTTC-GGTGCAAAC
1716843 TATGTGGTACTTCGGTGCAAACC
1 TATGTGGTACTTCGGTGCAAA-C
*
1716866 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGTACTTCGGTGCAAA-C
*
1716889 TATGTGGT-CATTC-GTG-ATAAT
1 TATGTGGTAC-TTCGGTGCA-AAC
*
1716910 TATGTGGCACTTCGGTG
1 TATGTGGTACTTCGGTG
1716927 AAAATTACGA
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
20 2 0.02
21 40 0.45
22 15 0.17
23 32 0.36
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (22 bp):
TATGTGGTACTTCGGTGCAAAC
Found at i:1716877 original size:23 final size:23
Alignment explanation
Indices: 1716843--1716926 Score: 104
Period size: 23 Copynumber: 3.7 Consensus size: 23
1716833 TCAGGACAAA
*
1716843 TATGTGGTACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
1716866 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
*
1716889 TATGTGGTCA-TTC-GTG-ATAA-T
1 TATGTGG-CACTTCGGTGCA-AACC
1716910 TATGTGGCACTTCGGTG
1 TATGTGGCACTTCGGTG
1716927 AAAATTACGA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.04
21 11 0.20
22 8 0.15
23 32 0.58
24 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:1724131 original size:20 final size:20
Alignment explanation
Indices: 1724102--1724147 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1724092 CTTGAGGAAG
*
1724102 TGGTTCCACAACTTCACATT
1 TGGTTTCACAACTTCACATT
1724122 TGGTTTCACAACTTCACATT
1 TGGTTTCACAACTTCACATT
1724142 TGGTTT
1 TGGTTT
1724148 TAGGGCTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (20 bp):
TGGTTTCACAACTTCACATT
Found at i:1730754 original size:116 final size:117
Alignment explanation
Indices: 1730550--1730779 Score: 318
Period size: 116 Copynumber: 2.0 Consensus size: 117
1730540 GAAGATTTAG
* * *
1730550 TCGAGGTAGACTTATTTCACTATTACTCAAGGAAGATCAAATCTTAAAAGAGAGGGATCTGTTCC
1 TCGAGATAGACTTATTCCACTATTACTCAAGGAAGATCAAACCTTAAAAGAGAGGGATCTGTTCC
* * *
1730615 ATTTCTTCTTTAGAAAAAATCATATCT-GGGACGTTGATTCATTCCATTGAA
66 ACTTCTTCTTGAGAAAAAATCATATATGGGGACGTTGATTCATTCCATTGAA
* * * * *
1730666 TCGAGATAGACTTGTTCCACTGTTACTCATGGAAGATCAAACCTTGAAAGAGAGGGATTTGTTCC
1 TCGAGATAGACTTATTCCACTATTACTCAAGGAAGATCAAACCTTAAAAGAGAGGGATCTGTTCC
* ** *
1730731 GCTTCTTCTTGAGTTAAAATCATATATGGGGATGTTGATTCATTCCATT
66 ACTTCTTCTTGAGAAAAAATCATATATGGGGACGTTGATTCATTCCATT
1730780 ATTCTTCATG
Statistics
Matches: 98, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
116 78 0.80
117 20 0.20
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (117 bp):
TCGAGATAGACTTATTCCACTATTACTCAAGGAAGATCAAACCTTAAAAGAGAGGGATCTGTTCC
ACTTCTTCTTGAGAAAAAATCATATATGGGGACGTTGATTCATTCCATTGAA
Found at i:1730900 original size:134 final size:134
Alignment explanation
Indices: 1730660--1730950 Score: 393
Period size: 134 Copynumber: 2.2 Consensus size: 134
1730650 GATTCATTCC
* * ** *
1730660 ATTGAATCGAGATAGACTTGTTCCACTGTTACTCATGGAAGATCAAACCTTGAAAGAGAGGGATT
1 ATTGAATCGAGGTAGACTTGTTCCACTGTCACTCAAAGAAGATCAAACCTTGAAAGAGAGGGATC
* ** * * * *
1730725 TGTTCCGCTTCTTCTTGAGTTAAAATCATATATGGGGATGTTGATTCATTCCATTATTCTTCATG
66 TGTTACGCTTCTTCTTGAGGGAAAATCAGATATGAGGATGTTGATTCATTCCACTATTCTTCAGG
1730790 GAAG
131 GAAG
* * * *
1730794 ATTGAATCGAGGTAGAATTGTTCCACTGTCACTCAAAGAATATCAAATCTTGAAAGGGAGGGATC
1 ATTGAATCGAGGTAGACTTGTTCCACTGTCACTCAAAGAAGATCAAACCTTGAAAGAGAGGGATC
* * * *
1730859 TGTTATGCTTCTTCTTGAGGGAAAATCAGATCTTAGGATGTTGATTCATTCCACTCTTCTTCAGG
66 TGTTACGCTTCTTCTTGAGGGAAAATCAGATATGAGGATGTTGATTCATTCCACTATTCTTCAGG
1730924 GAAG
131 GAAG
*
1730928 ATTTAATCGAGGTAGACTTGTTC
1 ATTGAATCGAGGTAGACTTGTTC
1730951 TTCTTGTTTT
Statistics
Matches: 135, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (134 bp):
ATTGAATCGAGGTAGACTTGTTCCACTGTCACTCAAAGAAGATCAAACCTTGAAAGAGAGGGATC
TGTTACGCTTCTTCTTGAGGGAAAATCAGATATGAGGATGTTGATTCATTCCACTATTCTTCAGG
GAAG
Found at i:1732171 original size:10 final size:10
Alignment explanation
Indices: 1732156--1732186 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
1732146 ATTTATTCTC
1732156 TTTTTCTTTT
1 TTTTTCTTTT
1732166 TTTTTCTTTT
1 TTTTTCTTTT
1732176 TTTTTCTTTT
1 TTTTTCTTTT
1732186 T
1 T
1732187 CCTTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:1732175 original size:7 final size:7
Alignment explanation
Indices: 1732151--1732236 Score: 59
Period size: 7 Copynumber: 11.4 Consensus size: 7
1732141 CATTTATTTA
1732151 TTCTCTTT
1 TTCT-TTT
1732159 TTCTTTT
1 TTCTTTT
1732166 TT-TTTCT
1 TTCTTT-T
1732173 TT-TTTT
1 TTCTTTT
1732179 TTCTTTT
1 TTCTTTT
*
1732186 TCCTTTTT
1 TTC-TTTT
1732194 TTCATTTTAT
1 TTC--TTT-T
1732204 TTCTTTCTT
1 TTC-TT-TT
1732213 TTCTTTT
1 TTCTTTT
*
1732220 TTCATTT
1 TTCTTTT
*
1732227 TTCATTT
1 TTCTTTT
1732234 TTC
1 TTC
1732237 ATTCTTCAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
6 6 0.09
7 35 0.51
8 12 0.17
9 11 0.16
10 5 0.07
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (7 bp):
TTCTTTT
Found at i:1732183 original size:26 final size:26
Alignment explanation
Indices: 1732154--1732228 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
1732144 TTATTTATTC
*
1732154 TCTTTTTCTTTTTTTTTCTTTTTTTT
1 TCTTTTTCTTTTTTTTTCATTTTTTT
* *
1732180 TCTTTTTC-CTTTTTTTCATTTTATT
1 TCTTTTTCTTTTTTTTTCATTTTTTT
*
1732205 TCTTTCTT-TTCTTTTTTCATTTTT
1 TCTTT-TTCTTTTTTTTTCATTTTT
1732229 CATTTTTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (26 bp):
TCTTTTTCTTTTTTTTTCATTTTTTT
Found at i:1732195 original size:10 final size:9
Alignment explanation
Indices: 1732156--1732221 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
1732146 ATTTATTCTC
1732156 TTTTTCTTT
1 TTTTTCTTT
1732165 TTTTT-TCTT
1 TTTTTCT-TT
*
1732174 TTTTT-TTC
1 TTTTTCTTT
*
1732182 TTTTTCCTT
1 TTTTTCTTT
1732191 TTTTTCATTT
1 TTTTTC-TTT
*
1732201 TATTTCTTT
1 TTTTTCTTT
*
1732210 CTTTTCTTT
1 TTTTTCTTT
1732219 TTT
1 TTT
1732222 CATTTTTCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 7 0.15
9 32 0.70
10 7 0.15
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:1732207 original size:35 final size:33
Alignment explanation
Indices: 1732156--1732234 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
1732146 ATTTATTCTC
* * * *
1732156 TTTTTCTTTTTTTTTCTTTTTTTTTCTTTTTCCTT
1 TTTTTCATTTTATTTC-TTTCTTTTCTTTTTCC-A
*
1732191 TTTTTCATTTTATTTCTTTCTTTTCTTTTTTCA
1 TTTTTCATTTTATTTCTTTCTTTTCTTTTTCCA
1732224 TTTTTCATTTT
1 TTTTTCATTTT
1732235 TCATTCTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 11 0.28
34 14 0.36
35 14 0.36
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTTTCATTTTATTTCTTTCTTTTCTTTTTCCA
Found at i:1732228 original size:9 final size:8
Alignment explanation
Indices: 1732154--1732221 Score: 68
Period size: 8 Copynumber: 8.0 Consensus size: 8
1732144 TTATTTATTC
1732154 TCTTTTTCT
1 TCTTTTT-T
1732163 T-TTTTTT
1 TCTTTTTT
1732170 TCTTTTTT
1 TCTTTTTT
1732178 T-TTCTTTT
1 TCTT-TTTT
1732186 TCCTTTTTT
1 T-CTTTTTT
1732195 TCATTTTATT
1 TC-TTTT-TT
1732205 TCTTTCTTT
1 TCTTT-TTT
1732214 TCTTTTTT
1 TCTTTTTT
1732222 CATTTTTCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.08
8 21 0.40
9 20 0.38
10 7 0.13
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
TCTTTTTT
Found at i:1732237 original size:7 final size:7
Alignment explanation
Indices: 1732211--1732244 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1732201 TATTTCTTTC
*
1732211 TTTTCTT
1 TTTTCAT
1732218 TTTTCAT
1 TTTTCAT
1732225 TTTTCAT
1 TTTTCAT
1732232 TTTTCAT
1 TTTTCAT
*
1732239 TCTTCA
1 TTTTCA
1732245 GGCAAAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:1732242 original size:34 final size:34
Alignment explanation
Indices: 1732166--1732242 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
1732156 TTTTTCTTTT
*
1732166 TTTTTC-TT-TTTTTTTCTTTTTCCTTTTTTTCA
1 TTTTTCATTCTTTTTTTCTTTTTCCTATTTTTCA
*
1732198 -TTTT-ATTTCTTTCTTTTCTTTTTTC-ATTTTTCA
1 TTTTTCA-TTCTTT-TTTTCTTTTTCCTATTTTTCA
1732231 TTTTTCATTCTT
1 TTTTTCATTCTT
1732243 CAGGCAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
31 4 0.11
32 2 0.05
33 10 0.27
34 20 0.54
35 1 0.03
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (34 bp):
TTTTTCATTCTTTTTTTCTTTTTCCTATTTTTCA
Found at i:1735735 original size:16 final size:16
Alignment explanation
Indices: 1735714--1735744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1735704 ATATCAAAAT
*
1735714 AGAATGAAAATAATAA
1 AGAATGAAAAAAATAA
1735730 AGAATGAAAAAAATA
1 AGAATGAAAAAAATA
1735745 TACACGAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (16 bp):
AGAATGAAAAAAATAA
Found at i:1737095 original size:26 final size:26
Alignment explanation
Indices: 1737059--1737116 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
1737049 TGAGATACGA
1737059 GCCCACCATAATACACATAAGGTCAT
1 GCCCACCATAATACACATAAGGTCAT
* *
1737085 GCCCACCATAATACATATAAGGTCGT
1 GCCCACCATAATACACATAAGGTCAT
1737111 GCCCAC
1 GCCCAC
1737117 TATTTCTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.19
Consensus pattern (26 bp):
GCCCACCATAATACACATAAGGTCAT
Found at i:1750022 original size:10 final size:10
Alignment explanation
Indices: 1750007--1750065 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
1749997 TAAAAATAAA
1750007 AATATAATAT
1 AATATAATAT
1750017 AATATAATAT
1 AATATAATAT
1750027 AATA-AATAAT
1 AATATAAT-AT
1750037 AA-ATAAATAT
1 AATAT-AATAT
*
1750047 AAAATAA-AT
1 AATATAATAT
1750056 AATAATAATA
1 AAT-ATAATA
1750066 AAAGATCCGG
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
9 8 0.19
10 28 0.67
11 6 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AATATAATAT
Found at i:1750027 original size:15 final size:14
Alignment explanation
Indices: 1750010--1750065 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 14
1750000 AAATAAAAAT
1750010 ATAATATAATATAA
1 ATAATATAATATAA
1750024 TATAATA-AATAATAA
1 -ATAATATAAT-ATAA
*
1750039 ATAAATATAAAATAA
1 AT-AATATAATATAA
1750054 ATAATAATAATA
1 ATAAT-ATAATA
1750066 AAAGATCCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 8 0.23
15 25 0.71
16 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATATAATATAA
Found at i:1750037 original size:3 final size:3
Alignment explanation
Indices: 1749988--1750066 Score: 53
Period size: 3 Copynumber: 27.0 Consensus size: 3
1749978 TAAGGGCACG
* * *
1749988 TAA TAA GAA TAA AAA TAA AAA T-A TAA T-A TAA T-A TAA T-A TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
1750033 TAA TAAA TAA -ATA TAA -AA TAAA TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA T-AA TAA TAA TAA TAA
1750067 AAGATCCGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
2 11 0.18
3 39 0.65
4 10 0.17
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:1750037 original size:7 final size:7
Alignment explanation
Indices: 1749995--1750067 Score: 64
Period size: 7 Copynumber: 10.3 Consensus size: 7
1749985 ACGTAATAAG
1749995 AATAA-A
1 AATAATA
*
1750001 AATAAAA
1 AATAATA
1750008 ATATAATA
1 A-ATAATA
1750016 TAAT-ATA
1 -AATAATA
1750023 ATATAATA
1 A-ATAATA
1750031 AATAATA
1 AATAATA
1750038 AATAAATA
1 AAT-AATA
1750046 TAA-AATA
1 -AATAATA
1750053 AATAAT-
1 AATAATA
1750059 AATAATA
1 AATAATA
1750066 AA
1 AA
1750068 AGATCCGGAC
Statistics
Matches: 57, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
6 14 0.25
7 25 0.44
8 15 0.26
9 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:1750038 original size:25 final size:23
Alignment explanation
Indices: 1749999--1750067 Score: 86
Period size: 25 Copynumber: 2.9 Consensus size: 23
1749989 AATAAGAATA
1749999 AAAATAAAAAT-ATAATATAATAT
1 AAAATAAAAATAATAATA-AATAT
*
1750022 AATATAATAAATAATAAATAAATAT
1 AAAATAA-AAATAAT-AATAAATAT
1750047 AAAATAAATAATAATAATAAA
1 AAAATAAA-AATAATAATAAA
1750068 AGATCCGGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 6 0.15
24 11 0.28
25 19 0.47
26 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAATAAAAATAATAATAAATAT
Found at i:1750064 original size:35 final size:33
Alignment explanation
Indices: 1749988--1750068 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 33
1749978 TAAGGGCACG
* *
1749988 TAATAAGAATAAAAATAAAAATATAATATAATA
1 TAATAATAATAAAAATAAAAATATAAAATAATA
1750021 TAAT-ATAATAAATAATAAATAAATATAAAATAA-A
1 TAATAATAATAAA-AAT-AA-AAATATAAAATAATA
1750055 TAATAATAATAAAA
1 TAATAATAATAAAA
1750069 GATCCGGACG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 7 0.17
33 7 0.17
34 8 0.19
35 20 0.48
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (33 bp):
TAATAATAATAAAAATAAAAATATAAAATAATA
Found at i:1750222 original size:25 final size:25
Alignment explanation
Indices: 1750193--1750254 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
1750183 CAAGCCCATA
* * *
1750193 AAATAATAATATAATATAATATA-AT
1 AAATAAAAATA-AAAATAAAATAGAT
1750218 AAATAAAAATAAAAATAAAATAGAT
1 AAATAAAAATAAAAATAAAATAGAT
*
1750243 AAATAACAATAA
1 AAATAAAAATAA
1750255 TAACAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 9 0.28
25 23 0.72
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (25 bp):
AAATAAAAATAAAAATAAAATAGAT
Found at i:1750229 original size:13 final size:13
Alignment explanation
Indices: 1750197--1750257 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
1750187 CCCATAAAAT
1750197 AATAATATAATATAA
1 AATAATA-AATA-AA
*
1750212 TATAATAAATAAA
1 AATAATAAATAAA
1750225 AATAA-AAAT-AA
1 AATAATAAATAAA
*
1750236 AATAGATAAATAAC
1 AATA-ATAAATAAA
1750250 AATAATAA
1 AATAATAA
1750258 CAAAAATCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 6 0.15
12 5 0.12
13 14 0.35
14 9 0.22
15 6 0.15
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (13 bp):
AATAATAAATAAA
Found at i:1750356 original size:190 final size:186
Alignment explanation
Indices: 1750005--1750381 Score: 528
Period size: 190 Copynumber: 2.0 Consensus size: 186
1749995 AATAAAAATA
* * *
1750005 AAAATATAATATAATATAATATAATAAATAATAAATAAATATAAAATAAATAATAATAATAAAAG
1 AAAATATAATATAATATAATATAATAAATAATAAATAAATAAAAAATAAATAACAATAATAAAAA
* *
1750070 ATCCGGACGAAAACGAGTGTCTACTATTATTATAGGTTTGACTATACCTTTTACGATAGTTCTTC
66 ATCAGGACGAAAACGAGTGTCTA-TATTATTATAGGTTTGACTATACCTTTGACGATAGTTCTTC
* * *
1750135 AATGGTTGCTCATGACTCCGGAATGGTTCAGGTGTTAGTCACTGTTAACAAGCCCAT
130 AATGGCTGCTCATGACTCCGGAATGGTTCAGGTGTTAGTCACAGTCAACAAGCCCAT
1750192 AAAATAATAATATAATATAATATAATAAATAA-AAATAAAAATAAAATAGATAAATAACAATAAT
1 AAAAT-ATAATATAATATAATATAATAAATAATAAAT--AAATAAAA-A-ATAAATAACAATAAT
* *
1750256 AACAAAAATCAGGACGAAAACGAGTGT-T-TGTTATTATAGGTTTGACTATACCTTTGACGATAT
61 -A-AAAAATCAGGACGAAAACGAGTGTCTATATTATTATAGGTTTGACTATACCTTTGACGATAG
** *
1750319 TTCTTCAATGGCTGC-CATGACTATGGGAATGGTTCAGGTGTTGGTCACAGTCAACAAGCCCAT
124 TTCTTCAATGGCTGCTCATGACT-CCGGAATGGTTCAGGTGTTAGTCACAGTCAACAAGCCCAT
1750382 CTCTCCATGG
Statistics
Matches: 169, Mismatches: 13, Indels: 13
0.87 0.07 0.07
Matches are distributed among these distances:
187 9 0.05
188 26 0.15
189 14 0.08
190 82 0.49
191 14 0.08
192 2 0.01
193 22 0.13
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (186 bp):
AAAATATAATATAATATAATATAATAAATAATAAATAAATAAAAAATAAATAACAATAATAAAAA
ATCAGGACGAAAACGAGTGTCTATATTATTATAGGTTTGACTATACCTTTGACGATAGTTCTTCA
ATGGCTGCTCATGACTCCGGAATGGTTCAGGTGTTAGTCACAGTCAACAAGCCCAT
Found at i:1756579 original size:23 final size:23
Alignment explanation
Indices: 1756531--1756580 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1756521 AGCATTTTTT
***
1756531 AAAAGTAAAATAGAAAAAACTTG
1 AAAAGTAAAATAGAAAAAAAAAG
1756554 AAAAGTAAAAT-GAAAAAGAAAAG
1 AAAAGTAAAATAGAAAAA-AAAAG
1756577 AAAA
1 AAAA
1756581 CTTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (23 bp):
AAAAGTAAAATAGAAAAAAAAAG
Found at i:1759334 original size:21 final size:20
Alignment explanation
Indices: 1759248--1759405 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
1759238 AAATGACCAA
**
1759248 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1759267 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1759287 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1759307 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1759328 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1759349 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
1759369 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1759390 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1759406 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1759398 original size:20 final size:20
Alignment explanation
Indices: 1759373--1759545 Score: 90
Period size: 20 Copynumber: 8.7 Consensus size: 20
1759363 GATTTTCCAG
* *
1759373 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
1759393 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
1759413 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
1759433 AATCGCAACGTGTATC-CATA
1 AATCGCAACGCG-AACACATA
* *
1759453 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1759473 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1759493 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
1759513 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
1759533 AATCGCAACGCGA
1 AATCGCAACGCGA
1759546 TTTTTAAAGC
Statistics
Matches: 139, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
19 2 0.01
20 135 0.97
21 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:1759420 original size:40 final size:40
Alignment explanation
Indices: 1759373--1759544 Score: 238
Period size: 40 Copynumber: 4.3 Consensus size: 40
1759363 GATTTTCCAG
* ** * *
1759373 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATC-CATA
*
1759413 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCATA
* *
1759453 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCATA
* *
1759493 TATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCATA
1759533 AATCGCAACGCG
1 AATCGCAACGCG
1759545 ATTTTTAAAG
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 117 0.98
41 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCATA
Found at i:1759456 original size:60 final size:60
Alignment explanation
Indices: 1759392--1759544 Score: 236
Period size: 60 Copynumber: 2.5 Consensus size: 60
1759382 GCGAATATGA
* * *
1759392 AAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCAT
1 AAATCGCAACGCGTATC-CGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
* * *
1759452 AAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
1759512 AAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG
1759545 ATTTTTAAAG
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
60 83 0.98
61 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
Found at i:1759964 original size:33 final size:33
Alignment explanation
Indices: 1759925--1760040 Score: 133
Period size: 33 Copynumber: 3.3 Consensus size: 33
1759915 TTCACTTAGA
1759925 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1759958 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
*
1759991 TTTCATTTCTCTCGTTGCGACAGTCATTCTCTCGTTGCGAT
1 TTTCA-TT-TCGCGTT---AC-G--ATTCTCTCGTTGCGAT
1760032 TTTCATTTC
1 TTTCATTTC
1760041 AACCAAAAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
33 36 0.51
34 2 0.03
35 6 0.09
38 1 0.01
39 2 0.03
40 2 0.03
41 21 0.30
ACGTcount: A:0.11, C:0.25, G:0.16, T:0.47
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1760002 original size:21 final size:21
Alignment explanation
Indices: 1759976--1760040 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
1759966 CGCGTTGCTA
1759976 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1759997 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1760017 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
1760038 TTC
1 TTC
1760041 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1761861 original size:93 final size:93
Alignment explanation
Indices: 1761702--1762017 Score: 623
Period size: 93 Copynumber: 3.4 Consensus size: 93
1761692 TAGATTGCTT
*
1761702 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1761767 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1761795 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1761860 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1761888 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1761953 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1761981 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1762018 AATACCCTGA
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 222 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1762171 original size:19 final size:18
Alignment explanation
Indices: 1762147--1762238 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
1762137 GCAACGAGAG
*
1762147 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-CAA
*
1762166 AATCGCAA--CG--ACAG
1 AATCGCAACGCGAAACAA
1762180 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-CAA
1762199 AATCGCAA--CG-AA-AA
1 AATCGCAACGCGAAACAA
1762213 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-CAA
1762232 AATCGCA
1 AATCGCA
1762239 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 6 0.10
17 6 0.10
18 1 0.02
19 27 0.45
ACGTcount: A:0.48, C:0.27, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAACAA
Found at i:1762173 original size:33 final size:33
Alignment explanation
Indices: 1762115--1762238 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
1762105 TAGTTTACTT
* * *
1762115 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGAAAGAA
** *
1762149 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGAAAGAA
*
1762182 TCGCAACGCGAAACCAAAATCGCAACGAAAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGAAAGAA
1762215 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
1762239 TTGCGATTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 70 0.85
34 12 0.15
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGAAAGAA
Found at i:1762216 original size:14 final size:14
Alignment explanation
Indices: 1762131--1762222 Score: 58
Period size: 14 Copynumber: 5.9 Consensus size: 14
1762121 CACGAAACTT
*
1762131 AAAATCGCAACGAG
1 AAAATCGCAACGAA
*
1762145 AGAATCGCAACGCGAAA
1 AAAATCGCAA--CG-AA
*
1762162 TGAAAATCGCAACGAC
1 --AAAATCGCAACGAA
*
1762178 AGAATCGCAACGCGAAA
1 AAAATCGCAA--CG-AA
1762195 CCAAAATCGCAACGAA
1 --AAAATCGCAACGAA
1762211 AAAATCGCAACG
1 AAAATCGCAACG
1762223 CGAAACCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 30 0.49
16 7 0.11
17 6 0.10
19 18 0.30
ACGTcount: A:0.48, C:0.25, G:0.20, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:1762256 original size:19 final size:19
Alignment explanation
Indices: 1762234--1762406 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
1762224 GAAACCAAAA
* *
1762234 TCGCATTGCGATTTTCACT
1 TCGCGTTGCGATTTTCATT
1762253 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1762267 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1762286 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1762302 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1762319 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
1762338 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
1762357 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
1762376 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1762396 TCGTGTTGCGA
1 TCGCGTTGCGA
1762407 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1762275 original size:14 final size:14
Alignment explanation
Indices: 1762256--1762312 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1762246 TTTCACTTCG
1762256 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1762270 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
1762287 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
1762303 CGTTGCGATT
1 CGTTGCGATT
1762313 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1762364 original size:38 final size:38
Alignment explanation
Indices: 1762234--1762406 Score: 159
Period size: 33 Copynumber: 4.8 Consensus size: 38
1762224 GAAACCAAAA
* *
1762234 TCGCATTGCGATTTTCACTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
1762269 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
1762302 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
1762338 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
1762376 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
1762407 AAGTAAACTA
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 51 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.39
39 11 0.10
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:1764347 original size:14 final size:14
Alignment explanation
Indices: 1764328--1764363 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1764318 ATTGTTTAAT
1764328 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1764342 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1764356 TGATTTGT
1 TGATTTGT
1764364 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1764544 original size:20 final size:19
Alignment explanation
Indices: 1764469--1764566 Score: 127
Period size: 20 Copynumber: 5.4 Consensus size: 19
1764459 AAAAATGACT
1764469 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1764488 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
1764506 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1764520 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1764540 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1764560 ATCGCAA
1 ATCGCAA
1764567 CGAGAGAATC
Statistics
Matches: 70, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
13 1 0.01
14 9 0.13
16 3 0.04
17 1 0.01
18 9 0.13
19 17 0.24
20 30 0.43
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1764546 original size:52 final size:53
Alignment explanation
Indices: 1764469--1764583 Score: 207
Period size: 54 Copynumber: 2.2 Consensus size: 53
1764459 AAAAATGACT
1764469 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATG-AAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1764520 ATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1764574 ATCGCAATGC
1 ATCGCAATGC
1764584 AATTTTCATT
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
51 10 0.16
52 19 0.31
53 6 0.10
54 26 0.43
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1764597 original size:19 final size:19
Alignment explanation
Indices: 1764575--1764836 Score: 303
Period size: 19 Copynumber: 14.7 Consensus size: 19
1764565 AACGAGAGAA
* *
1764575 TCGCAATGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
1764594 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1764613 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
1764630 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1764647 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1764666 TCGCATTGCGATTCTC--T
1 TCGCATTGCGATTTTCATT
1764683 T-G--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1764699 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1764718 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
1764735 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1764752 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1764771 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1764790 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
1764808 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
1764824 TCGCATTGCGATT
1 TCGCATTGCGATT
1764837 CTCTCGTTGC
Statistics
Matches: 210, Mismatches: 10, Indels: 46
0.79 0.04 0.17
Matches are distributed among these distances:
14 33 0.16
16 15 0.07
17 16 0.08
18 7 0.03
19 103 0.49
20 36 0.17
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1764724 original size:72 final size:72
Alignment explanation
Indices: 1764576--1764808 Score: 257
Period size: 72 Copynumber: 3.2 Consensus size: 72
1764566 ACGAGAGAAT
* * * * * * *
1764576 CGCAATGCAATTTTCATTTCGCATTGCGATTTTCAT-TTCCGCA-TTGCGATTCTCTCGTTGCGA
1 CGCATTGCGATTTTCATTTCGCATTGCGATTTTCTTGTTGCG-ATTTTC-ATT-TCGCATTGCGA
1764639 TTTTCATTT-
63 TTTTCATTTC
*
1764648 CGCATTGCGATTTTCATTTCGCATTGCGATTCTCTTGTTGCGATTTTCATTTCGCATTGCGATTT
1 CGCATTGCGATTTTCATTTCGCATTGCGATTTTCTTGTTGCGATTTTCATTTCGCATTGCGATTT
1764713 TCATTTC
66 TCATTTC
*
1764720 CGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
1 CGCATTGCGATTTTCATTTCGCATTGCGATTTTC--TT-G--TTGCGATTTTCATTTCGCATTGC
1764780 GATTTTCATTTC
61 GATTTTCATTTC
1764792 CGCATTGCGATTTTCAT
1 CGCATTGCGATTTTCAT
1764809 GTTGGGATTT
Statistics
Matches: 140, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
67 10 0.07
69 6 0.04
70 4 0.03
71 18 0.13
72 91 0.65
73 7 0.05
74 3 0.02
75 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.45
Consensus pattern (72 bp):
CGCATTGCGATTTTCATTTCGCATTGCGATTTTCTTGTTGCGATTTTCATTTCGCATTGCGATTT
TCATTTC
Found at i:1764743 original size:105 final size:108
Alignment explanation
Indices: 1764585--1764850 Score: 424
Period size: 105 Copynumber: 2.5 Consensus size: 108
1764575 TCGCAATGCA
1764585 ATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 ATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1764650 CATTGCGATTTTCATTTCGCATTGCGATTCTC-TT-G-TTGCG
66 CATTGCGATTTTCATTTCGCATTGCGATTCTCATTCGATTGCG
1764690 ATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 ATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCG
*
1764755 CATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
66 CATTGCGATTTTCATTTCGCATTGCGATTCTCA-TT-CG-ATTGCG
*
1764801 ATTTTCA--T-G--TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATT
1 ATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATT
1764851 GTAATTTCCG
Statistics
Matches: 153, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
105 122 0.80
106 14 0.09
107 2 0.01
108 1 0.01
109 2 0.01
111 12 0.08
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (108 bp):
ATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCG
CATTGCGATTTTCATTTCGCATTGCGATTCTCATTCGATTGCG
Found at i:1764818 original size:72 final size:72
Alignment explanation
Indices: 1764603--1764836 Score: 288
Period size: 72 Copynumber: 3.3 Consensus size: 72
1764593 TTCGCATTGC
*
1764603 GATTTTCATTTCCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTT-CGCATTGCGATTTT
1 GATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTT
*
1764662 CAT-TTCG
65 CATGTTGG
* * *** *
1764669 CA-TTGCGATTCTCTTGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTC
1 GATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTT
*
1764733 TC-TCGTTGC
64 TCAT-GTTGG
1764742 GATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
1 GATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
1764807 ATGTTGG
66 ATGTTGG
1764814 GATTTTCATTTCGCATTGCGATT
1 GATTTTCATTTCGCATTGCGATT
1764837 CTCTCGTTGC
Statistics
Matches: 140, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
65 3 0.02
66 11 0.08
67 1 0.01
68 3 0.02
69 4 0.03
71 16 0.11
72 92 0.66
73 7 0.05
74 3 0.02
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (72 bp):
GATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
ATGTTGG
Found at i:1764865 original size:53 final size:52
Alignment explanation
Indices: 1764585--1764850 Score: 398
Period size: 53 Copynumber: 5.1 Consensus size: 52
1764575 TCGCAATGCA
1764585 ATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCG
1 ATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCG
*
1764638 ATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTTGTTGCG
1 ATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG
1764690 ATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCG
1 ATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCG
*
1764743 ATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
1 ATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCG
*
1764801 ATTTTCA--T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG
1 ATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG
1764848 ATT
1 ATT
1764851 GTAATTTCCG
Statistics
Matches: 201, Mismatches: 5, Indels: 20
0.89 0.02 0.09
Matches are distributed among these distances:
47 8 0.04
49 2 0.01
50 2 0.01
51 3 0.01
52 61 0.30
53 104 0.52
54 3 0.01
55 3 0.01
56 3 0.01
58 12 0.06
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG
Found at i:1767151 original size:12 final size:12
Alignment explanation
Indices: 1767134--1767158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1767124 TCTTCGGGGA
1767134 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1767146 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1767158 C
1 C
1767159 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1767367 original size:24 final size:24
Alignment explanation
Indices: 1767333--1767379 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1767323 CTGAAACATC
1767333 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1767357 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1767380 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1768099 original size:20 final size:20
Alignment explanation
Indices: 1768071--1768299 Score: 244
Period size: 20 Copynumber: 11.4 Consensus size: 20
1768061 AAATTTCAGT
* * *
1768071 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
1768091 GTTGCGATTTACGGATTCTC
1 GTTGCGATTTACGGATTCGC
* *
1768111 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1768131 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1768151 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1768171 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1768191 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
1768211 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
1768231 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1768251 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1768271 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1768291 GTTGCGATT
1 GTTGCGATT
1768300 CTTGAAAATC
Statistics
Matches: 183, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 182 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1771980 original size:36 final size:36
Alignment explanation
Indices: 1771932--1772066 Score: 207
Period size: 36 Copynumber: 3.8 Consensus size: 36
1771922 ATCCATTATC
*
1771932 AGCTTTGATACATTCGTGTATCAATGTAATCATATT
1 AGCTTTGATACATTCGTGTATCAATGTTATCATATT
* *
1771968 AGCTTTGGTACATTCATGTATCAATGTTATCATATT
1 AGCTTTGATACATTCGTGTATCAATGTTATCATATT
* *
1772004 AGCTTTGATACATTCGTGTATCAATATTATCATATC
1 AGCTTTGATACATTCGTGTATCAATGTTATCATATT
* *
1772040 AGCTTTGGTACATTGGTGTATCAATGT
1 AGCTTTGATACATTCGTGTATCAATGT
1772067 CCAGCACCGT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 89 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (36 bp):
AGCTTTGATACATTCGTGTATCAATGTTATCATATT
Found at i:1773589 original size:49 final size:49
Alignment explanation
Indices: 1773528--1773752 Score: 288
Period size: 49 Copynumber: 4.6 Consensus size: 49
1773518 GCGAGTCATA
* * *
1773528 GGTGCATGTCGGCATAAAAGGTGGCACTAATGAAAGTTAAATGTATAAC
1 GGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
* * * *
1773577 AGTGCATTTCGGCATAAAAGGTGCCAATAATAAAAGTTAAATGTATAAC
1 GGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
* * * **
1773626 GGTGCATTTCGTCATAAAAGGTGCCACAAAGGAAAGCCAAATGCATAAC
1 GGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
* * *
1773675 GGTGCATTTTGGCATAAAAGGTGCCACTAATGAAATTTAAATACATAAC
1 GGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
* *
1773724 GGTGCATTTTCGACATAAAAGGTGGCACT
1 GGTGCA-TTTCGGCATAAAAGGTGCCACT
1773753 CATGGTATTC
Statistics
Matches: 150, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 131 0.87
50 19 0.13
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (49 bp):
GGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
Found at i:1780699 original size:49 final size:50
Alignment explanation
Indices: 1780637--1780851 Score: 269
Period size: 49 Copynumber: 4.4 Consensus size: 50
1780627 GGTGCATGTC
1780637 GACATAAAAGGTGCCACTAATGAAAGTTAAATGCATAATGGTGCATTTTG
1 GACATAAAAGGTGCCACTAATGAAAGTTAAATGCATAATGGTGCATTTTG
* * * *
1780687 GA-ATAAAAGGTGCCACAAAGGAAA-TTCAAATGCATAATGGTGAATTTCG
1 GACATAAAAGGTGCCACTAATGAAAGTT-AAATGCATAATGGTGCATTTTG
* * * *
1780736 G-TATAAAAGATGCCACTAACGAAAGTTAAATGCATAACT-GTGCA-TTTC
1 GACATAAAAGGTGCCACTAATGAAAGTTAAATGCATAA-TGGTGCATTTTG
* * * *
1780784 AACATAAAAGGTGCCACTAATGAAAGTTCAATGCATAATGGTGTATTTTT
1 GACATAAAAGGTGCCACTAATGAAAGTTAAATGCATAATGGTGCATTTTG
1780834 GACATAAAAGGTGCCACT
1 GACATAAAAGGTGCCACT
1780852 CATGGTATTC
Statistics
Matches: 140, Mismatches: 18, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
48 5 0.04
49 110 0.79
50 25 0.18
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (50 bp):
GACATAAAAGGTGCCACTAATGAAAGTTAAATGCATAATGGTGCATTTTG
Found at i:1781593 original size:25 final size:25
Alignment explanation
Indices: 1781565--1781634 Score: 61
Period size: 27 Copynumber: 2.7 Consensus size: 25
1781555 ATAAAAACTA
1781565 TATAAACTATAGTTTATATATAAAC
1 TATAAACTATAGTTTATATATAAAC
* * * *
1781590 TATATACTACAGTTGTTATTTATATAC
1 TATAAACTATAG-T-TTATATATAAAC
*
1781617 TATATAA-TATAATTTATA
1 TATA-AACTATAGTTTATA
1781635 CTTATATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
25 14 0.41
26 2 0.06
27 17 0.50
28 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (25 bp):
TATAAACTATAGTTTATATATAAAC
Found at i:1781608 original size:27 final size:25
Alignment explanation
Indices: 1781552--1781622 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
1781542 ATATGAACTA
* *
1781552 TATATAAAAACTATATAAACTATAGTT
1 TATATATAAACTATAT--ACTACAGTT
1781579 TATATATAAACTATATACTACAGTTGT
1 TATATATAAACTATATACTACAG-T-T
* *
1781606 TATTTATATACTATATA
1 TATATATAAACTATATA
1781623 ATATAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 6 0.16
26 1 0.03
27 31 0.82
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.42
Consensus pattern (25 bp):
TATATATAAACTATATACTACAGTT
Found at i:1781643 original size:15 final size:14
Alignment explanation
Indices: 1781623--1781657 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
1781613 ATACTATATA
*
1781623 ATATAATTTATACTT
1 ATATAATTTAGAC-T
1781638 ATATAATTTAGACT
1 ATATAATTTAGACT
1781652 ATATAA
1 ATATAA
1781658 ATTCAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (14 bp):
ATATAATTTAGACT
Found at i:1781803 original size:18 final size:18
Alignment explanation
Indices: 1781780--1781991 Score: 169
Period size: 18 Copynumber: 12.3 Consensus size: 18
1781770 ATATGTACTA
* *
1781780 TATATATAAATTATATGG
1 TATATATAAACTATATAG
* *
1781798 TATATACAAACTATTTA-
1 TATATATAAACTATATAG
* **
1781815 T-TACAT-AGTTAT-TAG
1 TATATATAAACTATATAG
1781830 TATATATAAACTATATAG
1 TATATATAAACTATATAG
* *
1781848 TATATATAAACAATATGG
1 TATATATAAACTATATAG
*
1781866 TATATATAAACTATACA-
1 TATATATAAACTATATAG
* *
1781883 T-CATAT-AATTCAT-TAG
1 TATATATAAACT-ATATAG
1781899 TATATATAAACTATATAG
1 TATATATAAACTATATAG
*
1781917 TATATATAAACTATATGG
1 TATATATAAACTATATAG
*
1781935 TATATATAAACTATACA-
1 TATATATAAACTATATAG
**
1781952 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
*
1781968 TATATATAAACTATATAT
1 TATATATAAACTATATAG
1781986 TATATA
1 TATATA
1781992 GTTCATTAGT
Statistics
Matches: 150, Mismatches: 30, Indels: 28
0.72 0.14 0.13
Matches are distributed among these distances:
14 2 0.01
15 12 0.08
16 22 0.15
17 20 0.13
18 94 0.63
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (18 bp):
TATATATAAACTATATAG
Found at i:1781922 original size:69 final size:69
Alignment explanation
Indices: 1781780--1781991 Score: 336
Period size: 69 Copynumber: 3.1 Consensus size: 69
1781770 ATATGTACTA
* * ** *
1781780 TATATATAAATTATATGGTATATACAAACTATTTATTACATAGTT-ATTAGTATATATAAACTAT
1 TATATATAAACTATATGGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACTAT
1781844 ATAG
66 ATAG
* * *
1781848 TATATATAAACAATATGGTATATATAAACTATACATCATATAATTCATTAGTATATATAAACTAT
1 TATATATAAACTATATGGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACTAT
1781913 ATAG
66 ATAG
1781917 TATATATAAACTATATGGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACTAT
1 TATATATAAACTATATGGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACTAT
*
1781982 ATAT
66 ATAG
1781986 TATATA
1 TATATA
1781992 GTTCATTAGT
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 37 0.28
69 94 0.72
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (69 bp):
TATATATAAACTATATGGTATATATAAACTATACATTATATAGTTCATTAGTATATATAAACTAT
ATAG
Found at i:1781940 original size:51 final size:51
Alignment explanation
Indices: 1781845--1782009 Score: 149
Period size: 51 Copynumber: 3.2 Consensus size: 51
1781835 ATAAACTATA
* * *
1781845 TAGTATATATAAACAATATGGTATATATAAACTATA-CATCATATAATTCAT
1 TAGTATATATAAACTATATAGTATATATAAACTATATAAT-ATATAATTCAT
** ** *
1781896 TAGTATATATAAACTATATAGTATATATAAACTATATGGTATAT-ATAAAC
1 TAGTATATATAAACTATATAGTATATATAAACTATATAATATATAATTCAT
* * * * *
1781946 TA-TACATTATATAGT-TCATTAGTATATATAAACTATATATTATATAGTTCAT
1 TAGTATA-TATAAACTAT-A-TAGTATATATAAACTATATAATATATAATTCAT
1781998 TAGTATATATAA
1 TAGTATATATAA
1782010 CATGTATATT
Statistics
Matches: 90, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
49 4 0.04
50 12 0.13
51 62 0.69
52 9 0.10
53 3 0.03
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (51 bp):
TAGTATATATAAACTATATAGTATATATAAACTATATAATATATAATTCAT
Found at i:1782020 original size:33 final size:33
Alignment explanation
Indices: 1781797--1782009 Score: 216
Period size: 33 Copynumber: 6.3 Consensus size: 33
1781787 AAATTATATG
* * *
1781797 GTATATACAAACTATTTATTACATAGTT-ATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
** *
1781829 GTATATATAAACTATATAGTATATATA-AACAATATG
1 GTATATATAAACTATATA-T-TATATAGTTC-AT-TA
* * *
1781865 GTATATATAAACTATACATCATATAATTCATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
** *
1781898 GTATATATAAACTATATAGTATATATA-AACTATATG
1 GTATATATAAACTATATA-T-TATATAGTTC-AT-TA
*
1781934 GTATATATAAACTATACATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
1781967 GTATATATAAACTATATATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
1782000 GTATATATAA
1 GTATATATAA
1782010 CATGTATATT
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
32 16 0.11
33 62 0.42
34 22 0.15
35 13 0.09
36 36 0.24
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.41
Consensus pattern (33 bp):
GTATATATAAACTATATATTATATAGTTCATTA
Found at i:1782130 original size:34 final size:34
Alignment explanation
Indices: 1782091--1782214 Score: 84
Period size: 34 Copynumber: 3.8 Consensus size: 34
1782081 TGAACAAATT
1782091 TTAAATATGAAGATTAAATTAATAAATTGTAACA
1 TTAAATATGAAGATTAAATTAATAAATTGTAACA
* * * **
1782125 TTAAATTTG--GACTAAA-T--TGAA--GTAATT
1 TTAAATATGAAGATTAAATTAATAAATTGTAACA
* * *
1782152 TTAAATATGAAGCTTAAATTAATATATTGTATCA
1 TTAAATATGAAGATTAAATTAATAAATTGTAACA
* *
1782186 TTAAAT-TTATAGATTAAATTGAACAAATT
1 TTAAATATGA-AGATTAAATT-AATAAATT
1782215 TAAAACTTGG
Statistics
Matches: 64, Mismatches: 17, Indels: 17
0.65 0.17 0.17
Matches are distributed among these distances:
27 12 0.19
29 8 0.12
30 1 0.02
31 1 0.02
32 8 0.12
33 2 0.03
34 26 0.41
35 6 0.09
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.40
Consensus pattern (34 bp):
TTAAATATGAAGATTAAATTAATAAATTGTAACA
Found at i:1782152 original size:61 final size:61
Alignment explanation
Indices: 1782077--1782215 Score: 197
Period size: 61 Copynumber: 2.2 Consensus size: 61
1782067 TATAAGGATC
1782077 AAATTGAACAAATTTTAAATATGAAGATTAAATTAATAAATTGTAACATTAAATTTGGACT
1 AAATTGAACAAATTTTAAATATGAAGATTAAATTAATAAATTGTAACATTAAATTTGGACT
** * * * * *
1782138 AAATTGAAGTAATTTTAAATATGAAGCTTAAATTAATATATTGTATCATTAAATTTATAGATT
1 AAATTGAACAAATTTTAAATATGAAGATTAAATTAATAAATTGTAACATTAAA-TT-TGGACT
1782201 AAATTGAACAAATTT
1 AAATTGAACAAATTT
1782216 AAAACTTGGA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
61 48 0.72
62 2 0.03
63 17 0.25
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (61 bp):
AAATTGAACAAATTTTAAATATGAAGATTAAATTAATAAATTGTAACATTAAATTTGGACT
Found at i:1782552 original size:103 final size:103
Alignment explanation
Indices: 1782369--1782559 Score: 330
Period size: 103 Copynumber: 1.9 Consensus size: 103
1782359 TCTCTAGAAA
* *
1782369 TTCATCTGTGTTCATCCCAAAAACCCTCATTTGATCTTCACAAACACCAAAACCCAAACCATTTC
1 TTCATATGTGTTCATCCCAAAAACCCTCATTTGATCTTCAAAAACACCAAAACCCAAACCATTTC
1782434 ATGTTTTTTCAATCAAACACCCATAATTTCAACCCTTG
66 ATGTTTTTTCAATCAAACACCCATAATTTCAACCCTTG
*
1782472 TTCATATGTGTTCATCCTAAAAACCCTCATTTGATCTTCAAAAACACCAAAACCCAAACCATTT-
1 TTCATATGTGTTCATCCCAAAAACCCTCATTTGATCTTCAAAAACACCAAAACCCAAACCATTTC
*
1782536 AGTGTTTTTTCGATCAAACACCCA
66 A-TGTTTTTTCAATCAAACACCCA
1782560 AAAATTCATC
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
102 1 0.01
103 82 0.99
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (103 bp):
TTCATATGTGTTCATCCCAAAAACCCTCATTTGATCTTCAAAAACACCAAAACCCAAACCATTTC
ATGTTTTTTCAATCAAACACCCATAATTTCAACCCTTG
Found at i:1787393 original size:20 final size:20
Alignment explanation
Indices: 1787368--1787408 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1787358 AAGTAATTTA
1787368 AAAGTTTAATGATTAAATTG
1 AAAGTTTAATGATTAAATTG
1787388 AAAGTTTAATGATTAAATTG
1 AAAGTTTAATGATTAAATTG
1787408 A
1 A
1787409 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (20 bp):
AAAGTTTAATGATTAAATTG
Found at i:1788850 original size:16 final size:16
Alignment explanation
Indices: 1788829--1788874 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
1788819 AATATTGAAA
1788829 CTTGAACTCAAAAAGG
1 CTTGAACTCAAAAAGG
1788845 CTTGAACTCAAAAAGG
1 CTTGAACTCAAAAAGG
1788861 CTTGAACTCAAAAA
1 CTTGAACTCAAAAA
1788875 AAAATTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (16 bp):
CTTGAACTCAAAAAGG
Found at i:1789865 original size:14 final size:14
Alignment explanation
Indices: 1789842--1789879 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
1789832 CAAGAACCAG
* *
1789842 AAATTGTTTTGTAA
1 AAATTATTTTATAA
1789856 AAATTATTTTATAA
1 AAATTATTTTATAA
1789870 AAATTATTTT
1 AAATTATTTT
1789880 CAGGGTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
AAATTATTTTATAA
Found at i:1795049 original size:57 final size:58
Alignment explanation
Indices: 1794953--1795062 Score: 186
Period size: 58 Copynumber: 1.9 Consensus size: 58
1794943 AAATAGTCCA
*
1794953 TTGACTATGGGATGTTGATTTGTTGAGTCCCGACTATTAAAAGTTACAAAATGACCAT
1 TTGACTATAGGATGTTGATTTGTTGAGTCCCGACTATTAAAAGTTACAAAATGACCAT
* *
1795011 TTGACTATAGGATGTTGCTTTGTTGAGT-CCTACTATTAAAAGTTACAAAATG
1 TTGACTATAGGATGTTGATTTGTTGAGTCCCGACTATTAAAAGTTACAAAATG
1795063 GTCACCGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 23 0.47
58 26 0.53
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (58 bp):
TTGACTATAGGATGTTGATTTGTTGAGTCCCGACTATTAAAAGTTACAAAATGACCAT
Found at i:1799013 original size:23 final size:24
Alignment explanation
Indices: 1798971--1799015 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1798961 CAGATTTTTT
*
1798971 GAGAGAAAAAAATAGGGAACAATA
1 GAGAGAAAAAAATAGAGAACAATA
*
1798995 GAGAGAAAAAACT-GAGAACAA
1 GAGAGAAAAAAATAGAGAACAA
1799016 CCAAGACAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.62, C:0.07, G:0.24, T:0.07
Consensus pattern (24 bp):
GAGAGAAAAAAATAGAGAACAATA
Found at i:1799710 original size:6 final size:6
Alignment explanation
Indices: 1799701--1799733 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1799691 TAAATGCATA
*
1799701 AATAAC AATAA- AATAAC AATAAC AATAAA AATA
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATA
1799734 CTCTATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAC
Found at i:1799716 original size:11 final size:11
Alignment explanation
Indices: 1799700--1799733 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1799690 TTAAATGCAT
1799700 AAATAACAATA
1 AAATAACAATA
1799711 AAATAACAATA
1 AAATAACAATA
*
1799722 ACAATAAAAATA
1 A-AATAACAATA
1799734 CTCTATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
AAATAACAATA
Found at i:1801772 original size:5 final size:5
Alignment explanation
Indices: 1801762--1801802 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
1801752 CGATTGCGTT
1801762 AATAA AAT-A AATAA AATAAA AATAA AATAA AATAA TAATAA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA -AATAA
1801803 TAGTAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.12
5 19 0.58
6 10 0.30
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Done.