Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 8 of 23
Found at i:1162520 original size:33 final size:33
Alignment explanation
Indices: 1162483--1162547 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1162473 TTTGAAGCAA
* *
1162483 TGTATCGATACAATTTATCATGTATCGATACAT
1 TGTATCGATACAATGTACCATGTATCGATACAT
* *
1162516 TGTATCGATACAATGTGCCCTGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
1162548 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:1162596 original size:13 final size:13
Alignment explanation
Indices: 1162578--1162604 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1162568 TGCCAATTTC
1162578 ATGTATCGATACA
1 ATGTATCGATACA
1162591 ATGTATCGATACA
1 ATGTATCGATACA
1162604 A
1 A
1162605 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1169084 original size:20 final size:19
Alignment explanation
Indices: 1169038--1169094 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1169028 TTGTATTCAT
*
1169038 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
1169057 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
1169076 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1169095 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1169161 original size:33 final size:32
Alignment explanation
Indices: 1169124--1169221 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 32
1169114 TACCACTATT
1169124 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
1169157 TGTATCGATACATGATGAATTGTATCGATACAA
1 TGTATCGATACATGA-GAATTGTATCGATACAA
1169190 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
1169222 TTGCTTTAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
33 61 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:1169162 original size:13 final size:13
Alignment explanation
Indices: 1169144--1169201 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
1169134 CATGGCACAT
1169144 TGTATCGATACAA
1 TGTATCGATACAA
1169157 TGTATCGATAC-A
1 TGTATCGATACAA
*
1169169 TG-AT-G--A-AT
1 TGTATCGATACAA
1169177 TGTATCGATACAA
1 TGTATCGATACAA
1169190 TGTATCGATACA
1 TGTATCGATACA
1169202 TGATGAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 2 0.05
11 2 0.05
12 4 0.11
13 24 0.65
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1169182 original size:20 final size:20
Alignment explanation
Indices: 1169157--1169222 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1169147 ATCGATACAA
1169157 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAT
1169177 TGTATCGATAC------AA-
1 TGTATCGATACATGATGAAT
1169190 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAT
1169210 TGTATCGATACAT
1 TGTATCGATACAT
1169223 TGCTTTAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 2 0.05
19 2 0.05
20 24 0.62
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGATGAAT
Found at i:1170749 original size:3 final size:3
Alignment explanation
Indices: 1170734--1170767 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1170724 AACCATCAAA
*
1170734 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1170768 TTGACTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1174885 original size:20 final size:20
Alignment explanation
Indices: 1174860--1174924 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
1174850 AAAACCCAAA
1174860 TGTATCGATACAAAATTCTT
1 TGTATCGATACAAAATTCTT
1174880 TGTATCGATAC---A----T
1 TGTATCGATACAAAATTCTT
1174893 TGTATCGATACAAAATTCTT
1 TGTATCGATACAAAATTCTT
1174913 TGTATCGATACA
1 TGTATCGATACA
1174925 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 12 0.32
16 1 0.03
17 1 0.03
20 24 0.63
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAAAATTCTT
Found at i:1174897 original size:13 final size:13
Alignment explanation
Indices: 1174879--1174938 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 13
1174869 ACAAAATTCT
1174879 TTGTATCGATACA
1 TTGTATCGATACA
1174892 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
1174908 TTCTTTGTATCGATACA
1 ----TTGTATCGATACA
1174925 TTGTATCGATACA
1 TTGTATCGATACA
1174938 T
1 T
1174939 GGGTTACTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 26 0.65
16 1 0.03
17 1 0.03
20 12 0.30
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1174902 original size:33 final size:33
Alignment explanation
Indices: 1174860--1174937 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
1174850 AAAACCCAAA
1174860 TGTATCGATACAAAATTCTTTGTATCGATACAT
1 TGTATCGATACAAAATTCTTTGTATCGATACAT
1174893 TGTATCGATACAAAATTCTTTGTATCGATACAT
1 TGTATCGATACAAAATTCTTTGTATCGATACAT
1174926 TGTATCGATACA
1 TGTATCGATACA
1174938 TGGGTTACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAAAATTCTTTGTATCGATACAT
Found at i:1175034 original size:20 final size:20
Alignment explanation
Indices: 1174996--1175035 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1174986 TTTCAAATTT
1174996 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
1175017 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
1175036 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:1176745 original size:22 final size:23
Alignment explanation
Indices: 1176717--1176760 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1176707 TGAAAATAAA
* *
1176717 TTTTTATCAAGGGGGA-GAAAAT
1 TTTTTATAAAGAGGGAGGAAAAT
1176739 TTTTTATAAAGAGGGAGGAAAA
1 TTTTTATAAAGAGGGAGGAAAA
1176761 CGAAACTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.30
Consensus pattern (23 bp):
TTTTTATAAAGAGGGAGGAAAAT
Found at i:1177321 original size:13 final size:13
Alignment explanation
Indices: 1177303--1177329 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1177293 AAATTATGCT
1177303 TTGTATCGATACA
1 TTGTATCGATACA
1177316 TTGTATCGATACA
1 TTGTATCGATACA
1177329 T
1 T
1177330 GTTCATTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1177363 original size:20 final size:19
Alignment explanation
Indices: 1177313--1177369 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1177303 TTGTATCGAT
*
1177313 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
1177332 TCATTGTGTCGATACATGC
1 ACATTGTATCGATACATGC
1177351 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1177370 AATCTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1181557 original size:22 final size:22
Alignment explanation
Indices: 1181507--1181557 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
1181497 ATGTATCAAT
*
1181507 ATCATTAAATTAAGTTAAAATC
1 ATCATTAAATTAAGTCAAAATC
*
1181529 -TAGATTAAATTAAGATCAAAA-C
1 AT-CATTAAATTAAG-TCAAAATC
1181551 ATCATTA
1 ATCATTA
1181558 CATCAAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
21 1 0.04
22 16 0.70
23 6 0.26
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (22 bp):
ATCATTAAATTAAGTCAAAATC
Found at i:1192767 original size:13 final size:13
Alignment explanation
Indices: 1192749--1192803 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
1192739 ACATAAAGTG
1192749 ATGTATCGATACA
1 ATGTATCGATACA
1192762 ATGTATCGATACATA
1 ATGTATCGATAC--A
1192777 AGTGTTGTATCGATACA
1 A----TGTATCGATACA
1192794 ATGTATCGAT
1 ATGTATCGAT
1192804 CCATAAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 21 0.58
15 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1192786 original size:32 final size:32
Alignment explanation
Indices: 1192730--1192830 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
1192720 TTCAACAATT
*
1192730 TGTATCGATACATAAAGTGATGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1192763 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
1192795 TGTATCGATCCATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1192827 TGTA
1 TGTA
1192831 AGCTACTGCG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1192787 original size:19 final size:18
Alignment explanation
Indices: 1192728--1192825 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
1192718 ATTTCAACAA
1192728 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
1192747 TGATGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1192763 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1192779 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
1192795 --TGTATCGATCCATAAG
1 TTTGTATCGATACATAAG
1192811 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1192826 ATGTAAGCTA
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.37
20 11 0.17
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1192947 original size:52 final size:51
Alignment explanation
Indices: 1192884--1193032 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 51
1192874 ATCAATACAT
**
1192884 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTGAT-AATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
1192936 TGTATCGATACACTAT-AAAATGTATCGATACATACAGGCAAATTTGCCCAGA
1 TGTATCGATACA-T-TGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
1192988 TGTATCGATACACTATGA-AATGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACA-T-TGATAATGTATCGATACATGCAGGCAAATTT
1193033 TCATATTTTA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 84 0.95
53 3 0.03
54 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATTGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:1197784 original size:27 final size:28
Alignment explanation
Indices: 1197675--1197792 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 28
1197665 TGATCCTCCC
1197675 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTT
1 AAAGTCCACGACTCCGTGGCACC-----CTTTT
* *
1197708 CAGAGTCCACGACTCCGTGGCACTCTTTTT
1 -AAAGTCCACGACTCCGTGGCAC-CCTTTT
* * *
1197738 AAAGCCCACAACTCCATGGCACCCTTTT
1 AAAGTCCACGACTCCGTGGCACCCTTTT
1197766 -AAGTCCACGACTCCGTGGCACCCTTTT
1 AAAGTCCACGACTCCGTGGCACCCTTTT
1197793 TTCCTTTTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
27 24 0.33
28 5 0.07
29 18 0.25
30 4 0.05
34 21 0.29
35 1 0.01
ACGTcount: A:0.20, C:0.35, G:0.16, T:0.29
Consensus pattern (28 bp):
AAAGTCCACGACTCCGTGGCACCCTTTT
Found at i:1197835 original size:33 final size:33
Alignment explanation
Indices: 1197676--1198284 Score: 555
Period size: 33 Copynumber: 18.7 Consensus size: 33
1197666 GATCCTCCCA
* *
1197676 AAGTCCACGACTCCGTGGCACCTT-TTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * *
1197708 CAGAGTCCACGACTCCGTGGCA-C-TCTT--TTTA
1 -A-AGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* *
1197739 AAGCCCACAACTCCATGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* *
1197766 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTGTTCCTTTT
* *
1197801 AAG-CTCACACCTCCGTTGCACCTTGTTCCTTTT
1 AAGTC-CACAACTCCGTGGCACCTTGTTCCTTTT
* * *
1197834 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * *
1197867 AAGCCCACACCTCCATGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
*
1197900 AAGTCCACAACTCCGTGGCACCCTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTGTTCCTTTT
* *
1197935 AAGTCCACAACTTC-TGGCACCTTGCTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * *
1197967 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1198000 AAAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* *
1198028 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTGTTCCTTTT
* *
1198063 AAGCCCACACCTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
*
1198096 AAGTCCACAACTCCGTGGCACTCTTTTTCACTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTGTTC-CTTTT
1198131 AAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * * **
1198165 AAGTCCACGACTCTGTGGCACCTTCTT--TTCA
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* *
1198196 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTGTT-CCTTTT
*
1198231 AAAGTCCACAACTCCATGGCACCTT-TT--TTTT
1 -AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* *
1198262 AAAGCCCATAACTCCGTGGCACC
1 -AAGTCCACAACTCCGTGGCACC
1198285 CCCTTCCAAA
Statistics
Matches: 481, Mismatches: 61, Indels: 70
0.79 0.10 0.11
Matches are distributed among these distances:
27 39 0.08
28 6 0.01
29 19 0.04
30 1 0.00
31 47 0.10
32 27 0.06
33 155 0.32
34 64 0.13
35 83 0.17
36 40 0.08
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.33
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
Found at i:1197996 original size:100 final size:100
Alignment explanation
Indices: 1197676--1198284 Score: 561
Period size: 100 Copynumber: 6.2 Consensus size: 100
1197666 GATCCTCCCA
* * * *
1197676 AAGTCCACGACTCCGTGGCACCTT-TTTCTTTTCAGAGTCCACGACTCCGTGGCA--C-TCTT--
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-A-AGTCCACAACTCCGTGGCACCCTTTTTCC
* * *
1197735 TTTAAAGCCCACAACTCCATGGCA-C-----CCTTTT
64 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * * * *
1197766 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTTAAG-CTCACACCTCCGTTGCA-CCTTGTTC
1 AAGTCCACAACTCCGTGGCA-CC-TTGTTCCTTTTAAGTC-CACAACTCCGTGGCACCCTTTTTC
* * *
1197829 CTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
63 CTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * *
1197867 AAGCCCACACCTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTTCCT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTTTCCT
* *
1197932 TTTAAGTCCACAACTTC-TGGCACCTTGCTCCTTTT
65 TTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * *
1197967 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCA--C-----CCT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTTCCT
* *
1198025 TTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTT
65 TTTAAGTCCACAACTCCGTGGCA-CC-TTGTTCCTTTT
* * *
1198063 AAGCCCACACCTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCACT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTC-CT
1198128 TTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
65 TTT-AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * * ** * *
1198165 AAGTCCACGACTCTGTGGCACCTTCTT--TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTT-CCT
*
1198228 TTTAAAGTCCACAACTCCATGGCACCTT-TT--TTTT
65 TTT-AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* *
1198262 AAAGCCCATAACTCCGTGGCACC
1 -AAGTCCACAACTCCGTGGCACC
1198285 CCCTTCCAAA
Statistics
Matches: 435, Mismatches: 52, Indels: 56
0.80 0.10 0.10
Matches are distributed among these distances:
90 21 0.05
91 16 0.04
92 4 0.01
93 28 0.06
94 5 0.01
95 42 0.10
96 38 0.09
97 5 0.01
98 18 0.04
99 29 0.07
100 105 0.24
101 65 0.15
102 33 0.08
103 7 0.02
104 19 0.04
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.33
Consensus pattern (100 bp):
AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCCTT
TTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
Found at i:1198035 original size:27 final size:27
Alignment explanation
Indices: 1197961--1198054 Score: 107
Period size: 27 Copynumber: 3.2 Consensus size: 27
1197951 GCACCTTGCT
*
1197961 CCTTTTAAGTCCACAACTCTGTGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
1197989 TTTTTCCTTTTAAAGTCCACAACTCCGTGGCAC
1 -----CCTTTT-AAGTCCACAACTCCGTGGCAC
*
1198022 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
1198049 CCTTTT
1 CCTTTT
1198055 TTCCTTTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
27 26 0.45
28 6 0.10
33 7 0.12
34 19 0.33
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.34
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:1198055 original size:28 final size:28
Alignment explanation
Indices: 1197931--1198055 Score: 101
Period size: 27 Copynumber: 4.1 Consensus size: 28
1197921 CCTTTTTTCC
*
1197931 TTTTAAGTCCACAACTTC-TGGCACCTTGCT
1 TTTTAAGTCCACAACTCCGTGGCACC---CT
*
1197961 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCT
1 --TTTTAAGTCCACAACTCCGTGGCA-C-----CCT
*
1197997 TTTAAAGTCCACAACTCCGTGGCACCC-
1 TTTTAAGTCCACAACTCCGTGGCACCCT
*
1198024 TTTTAAGTCCACGACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCACCCT
1198052 TTTT
1 TTTT
1198056 TCCTTTTAAG
Statistics
Matches: 79, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
27 25 0.32
28 6 0.08
32 16 0.20
33 6 0.08
34 23 0.29
36 2 0.03
39 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (28 bp):
TTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:1198062 original size:196 final size:193
Alignment explanation
Indices: 1197828--1198222 Score: 600
Period size: 196 Copynumber: 2.0 Consensus size: 193
1197818 GCACCTTGTT
* *
1197828 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGCCCACACCTCCATGGCACCTTGT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACACCTCCATGGCACCTTGT
*
1197893 TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTTC-CTTTT-AAGTCCACAACTTC-TGGCAC
66 TCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTTTCACTTTTAAAGTCCACAACTCCGTGGCAC
* *
1197955 CTTGCTCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTT-AAAGTCCACAACTCCGTGG
130 CTTGCTCCTTTTAAGTCCACAACTCTGTGGCA-C--CTT-CTTTTCAAAGCCCACAACTCCGTGG
1198019 CAC
191 CAC
* *
1198022 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTTAAGCCCACACCTCCGTGGCACCTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CC-TTTTTCCTTTTAAGCCCACACCTCCATGGCACCTT
*
1198087 GTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCACTTTTAAAGTCCACAACTCCGTGGCA
64 GTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCACTTTTAAAGTCCACAACTCCGTGGCA
* *
1198152 CCTTGTTCCTTTTAAGTCCACGACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC
129 CCTTGCTCCTTTTAAGTCCACAACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC
*
1198217 TCTTTT
1 CCTTTT
1198223 TCCCTTTTAA
Statistics
Matches: 184, Mismatches: 11, Indels: 11
0.89 0.05 0.05
Matches are distributed among these distances:
194 29 0.16
195 35 0.19
196 70 0.38
197 14 0.08
198 36 0.20
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.35
Consensus pattern (193 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACACCTCCATGGCACCTTGT
TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCACTTTTAAAGTCCACAACTCCGTGGCACC
TTGCTCCTTTTAAGTCCACAACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC
Found at i:1198264 original size:262 final size:258
Alignment explanation
Indices: 1197673--1198285 Score: 853
Period size: 262 Copynumber: 2.4 Consensus size: 258
1197663 AATGATCCTC
* * * *
1197673 CCAAAGTCCACGACTCCGTGGCACCTTTTT-CTTTTCAGAGTCCACGACTCCGTGGCA-C-TCTT
1 CCAAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT-AAAGTCCACAACTCCGTGGCACCTTTTT
*
1197735 TTTAAAGCCCACAACTCCATGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTT
65 TTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTT
* * *
1197800 TAAGCTCACACCTCCGTTGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTT
130 TAAGCCCACACCTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTT
*
1197865 TTAAGCCCACACCTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTT
195 TTAAGCCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTT
* * ** * *
1197929 CCTTTTAAGTCCACAACTTC-TGGCACCTTGCTCCTTTT-AAGTCCACAACTCTGTGGCATCTTT
1 CC---AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCA-CCTT
*
1197992 TTCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
62 TT--TTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1198057 CCTTTTAAGCCCACACCTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTT
125 CCTTTTAAGCCCACACCTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA-TCTTT
* * * *
1198122 TTCACTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCTGTGGCA-C
189 TTC-CTTTT-AAGCCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC
1198186 CTTCTTTT
252 CTT-TTTT
* *
1198194 -CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCATGGCACCTTTT
1 CCAAAGTCCACAACTCCGTGGCAC-CTTTTT-CCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*
1198258 TTTTAAAGCCCATAACTCCGTGGCACCC
64 TTTTAAAGCCCACAACTCCGTGGCACCC
1198286 CCTTCCAAAG
Statistics
Matches: 310, Mismatches: 30, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
256 2 0.01
257 17 0.05
258 10 0.03
259 17 0.05
260 2 0.01
261 12 0.04
262 147 0.47
263 12 0.04
264 21 0.07
265 70 0.23
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.33
Consensus pattern (258 bp):
CCAAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTT
TTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTT
AAGCCCACACCTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTT
TAAGCCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTT
Found at i:1198266 original size:67 final size:65
Alignment explanation
Indices: 1197675--1198284 Score: 585
Period size: 67 Copynumber: 9.4 Consensus size: 65
1197665 TGATCCTCCC
* * * * *
1197675 AAAGTCCACGACTCCGTGGCACCTT-TTTCTTTTCAGAGTCCACGACTCCGTGGCA-C--TCTTT
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT-A-AGTCCACAACTCCGTGGCACCTTTTTTT
1197736 TT
64 TT
* *
1197738 AAAGCCCACAACTCCATGGCA-C-----CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTT--
1197797 TTT
63 TTT
* * * * * *
1197800 TAAGCTCACACCTCCGTTGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTT
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT--TT
1197865 TT
64 TT
* *
1197867 -AAGCCCACACCTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTT--
1197931 TTT
63 TTT
* * * * * *
1197934 TAAGTCCACAACTTC-TGGCACCTTGCTCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTT
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT--TT
1197998 TT
64 TT
* *
1198000 AAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTT--
1198059 TTT
63 TTT
* *
1198062 TAAGCCCACACCTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCAC
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT---
1198127 TTTT
62 TTTT
* * * * *
1198131 AAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCTGTGGCACC-TTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTT
* *
1198195 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCATGGCACC-TTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTGTT-CCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTT
1198259 TTT
63 TTT
*
1198262 AAAGCCCATAACTCCGTGGCACC
1 AAAGCCCACAACTCCGTGGCACC
1198285 CCCTTCCAAA
Statistics
Matches: 462, Mismatches: 48, Indels: 71
0.80 0.08 0.12
Matches are distributed among these distances:
56 19 0.04
57 1 0.00
58 6 0.01
60 4 0.01
61 24 0.05
62 47 0.10
63 20 0.04
64 24 0.05
65 6 0.01
66 79 0.17
67 109 0.24
68 68 0.15
69 54 0.12
71 1 0.00
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.33
Consensus pattern (65 bp):
AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTT
Found at i:1198369 original size:33 final size:34
Alignment explanation
Indices: 1198287--1198549 Score: 316
Period size: 32 Copynumber: 8.0 Consensus size: 34
1198277 GTGGCACCCC
* * *
1198287 CTTCCAAAGCCCACATAAGTTGGTGGCAATCCCCTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAA--CCCTT
* *
1198323 -TTC-AAAGCTCACACAAGTTGGTGGCAA-CCTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
*
1198354 CTTCTAAAGCCCACACAAGTTGGTGGCAATCCC--
1 CTTCTAAAGCCCACACAAGTCGGTGGCAA-CCCTT
*
1198387 C-TCTAAAGCCCACACAAGTCGGTGGCAACCTTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
*
1198420 C-TCTAAAGCCCACACAAGTCGGTGGCAATCC--
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
*
1198451 CTTCAAAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
* *
1198485 -TTC-AAAGCCCACACAAGTTGGTGGCAACCATT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1198517 C-TCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1198550 TTAAGTCCAA
Statistics
Matches: 203, Mismatches: 13, Indels: 25
0.84 0.05 0.10
Matches are distributed among these distances:
31 7 0.03
32 86 0.42
33 83 0.41
34 22 0.11
35 5 0.02
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (34 bp):
CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:1198425 original size:65 final size:65
Alignment explanation
Indices: 1198292--1198546 Score: 356
Period size: 65 Copynumber: 3.9 Consensus size: 65
1198282 ACCCCCTTCC
* * * *
1198292 AAAGCCCACATAAGTTGGTGGCAATCCCCTTTTCAAAGCTCACACAAGTTGGTGGCAACC-TTCT
1 AAAGCCCACACAAGTTGGTGGCAATCCCC-TCT-AAAGCCCACACAAGTCGGTGGCAACCTTTC-
1198356 TCT
63 TCT
1198359 AAAGCCCACACAAGTTGGTGGCAATCCCCTCTAAAGCCCACACAAGTCGGTGGCAACCTTTCTCT
1 AAAGCCCACACAAGTTGGTGGCAATCCCCTCTAAAGCCCACACAAGTCGGTGGCAACCTTTCTCT
* * *
1198424 AAAGCCCACACAAGTCGGTGGCAATCCCTTCAAAAGCCCACACAAGTCGGTGGCAACCCTTT-TC
1 AAAGCCCACACAAGTTGGTGGCAATCCCCTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTTCTC
1198488 -
65 T
*
1198488 AAAGCCCACACAAGTTGGTGGCAA-CCATTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 AAAGCCCACACAAGTTGGTGGCAATCC--CCTCTAAAGCCCACACAAGTCGGTGGCAACC
1198547 CTTTTAAGTC
Statistics
Matches: 173, Mismatches: 11, Indels: 11
0.89 0.06 0.06
Matches are distributed among these distances:
63 2 0.01
64 25 0.14
65 108 0.62
66 10 0.06
67 28 0.16
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (65 bp):
AAAGCCCACACAAGTTGGTGGCAATCCCCTCTAAAGCCCACACAAGTCGGTGGCAACCTTTCTCT
Found at i:1198663 original size:49 final size:48
Alignment explanation
Indices: 1198549--1199191 Score: 707
Period size: 49 Copynumber: 13.8 Consensus size: 48
1198539 TGGCAACCCT
* * *
1198549 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA---C--C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACTTCATC
* * *
1198592 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
* *
1198641 TTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA---C--C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACTTCATC
* *
1198684 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
* *
1198733 TTTAAGTCCAATGTAGCTGGCCCTGAATCAGCACATTGGCA---C--C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACTTCATC
*
1198776 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
* *
1198825 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA---C--C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACTTCATC
*
1198868 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
* **
1198917 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACGTTGG-----CATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACTTCATC
* * *
1198960 TTTATGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
* *
1199009 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
* * *
1199058 TTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGGCA---C--C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACTTCATC
*
1199101 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCAC---TT--CATC
* *
1199154 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTG
1199192 ACATCCTTTT
Statistics
Matches: 514, Mismatches: 46, Indels: 70
0.82 0.07 0.11
Matches are distributed among these distances:
43 229 0.45
45 4 0.01
47 4 0.01
49 240 0.47
51 1 0.00
53 36 0.07
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (48 bp):
TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACTTCATC
Found at i:1198706 original size:92 final size:92
Alignment explanation
Indices: 1198549--1199142 Score: 876
Period size: 92 Copynumber: 6.5 Consensus size: 92
1198539 TGGCAACCCT
* * * *
1198549 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
*
1198614 TTGAATCAGCATATTGGCATCTTCATC
66 TTGAATCAGCATATTGGCACCTTCATC
*
1198641 TTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
*
1198706 TTGAATCAGCATATTGGCACCATCATC
66 TTGAATCAGCATATTGGCACCTTCATC
* * *
1198733 TTTAAGTCCAATGTAGCTGGCCCTGAATCAGCACATTGGCACCTTTAAGTCCAATGTTGCTGGCC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
1198798 TTGAATCAGCATATTGGCACCTTCATC
66 TTGAATCAGCATATTGGCACCTTCATC
*
1198825 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
1198890 TTGAATCAGCATATTGGCACCTTCATC
66 TTGAATCAGCATATTGGCACCTTCATC
* * * * *
1198917 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACGTTGGCATCTTTATGTCCAATATCGCTGGCC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
1198982 TTGAATCAGCATATTGGCACCTTCATC
66 TTGAATCAGCATATTGGCACCTTCATC
* * * *
1199009 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTTCAATGTAG
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAG
* *
1199074 CTAGCCTTGAATCAGCACATTGGCA----C--C
60 CTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
1199101 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1199143 ATTTTCCCAT
Statistics
Matches: 463, Mismatches: 33, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
88 1 0.00
92 425 0.92
94 1 0.00
98 36 0.08
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
TTGAATCAGCATATTGGCACCTTCATC
Found at i:1199171 original size:53 final size:54
Alignment explanation
Indices: 1199100--1199249 Score: 185
Period size: 55 Copynumber: 2.8 Consensus size: 54
1199090 ACATTGGCAC
1199100 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTCCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCCCAT
* * * * * *
1199153 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCCCAT
* * * * *
1199208 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1199250 TCTTTATCAC
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
53 38 0.47
55 42 0.52
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCCCAT
Found at i:1199230 original size:55 final size:53
Alignment explanation
Indices: 1199100--1199238 Score: 170
Period size: 53 Copynumber: 2.6 Consensus size: 53
1199090 ACATTGGCAC
* *
1199100 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCCAT
* * * *
1199153 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTCCCAT
* * * *
1199208 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
1199239 ACATATTGGC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 38 0.53
55 34 0.47
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCCAT
Found at i:1202913 original size:115 final size:115
Alignment explanation
Indices: 1202739--1203077 Score: 423
Period size: 115 Copynumber: 2.9 Consensus size: 115
1202729 TTGGCTTAAC
* * ** *
1202739 ATAATTAAATAAAATAGGCCACCAATAAATTAATTAAATATGCACAT-AGGCCACATTTTATCGA
1 ATAATTAAATAAAATAGGCC-CAAATAAATTAATTAAATAAGCATGTGAGGCC-TATTTTATCGA
* * ** *
1202803 ATGTATAGTTTTTATAAGGCTTGGGCTTAAATTAAGTAATTTATGACCCAAT
64 ATATATAGTTTTTATAAGACTTGACCTTAAATTAAATAATTTATGACCCAAT
* * * * *
1202855 ATAACTAAATAAAATATGCCCAAATAAATTGATTAAATAAGCATGTGAGGCCTTTTTTATCTAAT
1 ATAATTAAATAAAATAGGCCCAAATAAATTAATTAAATAAGCATGTGAGGCCTATTTTATCGAAT
* *
1202920 ATATATTTTTTATAAGACTTGACCTTAAATTAAATAATTTATGACCCCAT
66 ATATAGTTTTTATAAGACTTGACCTTAAATTAAATAATTTATGACCCAAT
* * *
1202970 ATAATTAAATAAAATAGGCCTAAATAAATTAATTAAATAAGCATGTG-GGACCTATTTTATCTAG
1 ATAATTAAATAAAATAGGCCCAAATAAATTAATTAAATAAGCATGTGAGG-CCTATTTTATCGAA
* * *
1203034 TAAATA-ATTTTATAAGACTTGACCTTAAATTAAATAATCTATGA
65 TATATAGTTTTTATAAGACTTGACCTTAAATTAAATAATTTATGA
1203078 ACTTACCTTA
Statistics
Matches: 195, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
114 38 0.19
115 134 0.69
116 23 0.12
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (115 bp):
ATAATTAAATAAAATAGGCCCAAATAAATTAATTAAATAAGCATGTGAGGCCTATTTTATCGAAT
ATATAGTTTTTATAAGACTTGACCTTAAATTAAATAATTTATGACCCAAT
Found at i:1205785 original size:15 final size:15
Alignment explanation
Indices: 1205765--1205798 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1205755 ATCCCAAGTG
1205765 TTTTCTTTCT-TTTT
1 TTTTCTTTCTCTTTT
1205779 CTTTTCTTTCTCTTTT
1 -TTTTCTTTCTCTTTT
1205795 TTTT
1 TTTT
1205799 TTCGTCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTCTCTTTT
Found at i:1206075 original size:20 final size:20
Alignment explanation
Indices: 1206046--1206104 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
1206036 GGTGCTTTTT
1206046 CTTTTTTTCTTTGCTTGCTG
1 CTTTTTTTCTTTGCTTGCTG
* * *
1206066 CTTTTCTTCTTTCCTTGTTG
1 CTTTTTTTCTTTGCTTGCTG
1206086 -TTTCTTTTCTTTGCTTGCT
1 CTTT-TTTTCTTTGCTTGCT
1206105 ATTTTAGTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.00, C:0.22, G:0.12, T:0.66
Consensus pattern (20 bp):
CTTTTTTTCTTTGCTTGCTG
Found at i:1206377 original size:33 final size:33
Alignment explanation
Indices: 1206315--1206435 Score: 170
Period size: 33 Copynumber: 3.6 Consensus size: 33
1206305 TTTGCTTTGT
* *
1206315 TGTTTCGATTGCTACTTTTATTCTTCTTTGAACTGC
1 TGTTTCGATTGC-A--TTCATTCTCCTTTGAACTGC
* * *
1206351 TATTTTGATTGCATTCATTCTCCTTTGAACTAC
1 TGTTTCGATTGCATTCATTCTCCTTTGAACTGC
1206384 TGTTTCGATTGCATTCATTCTCCTTTGAACTGC
1 TGTTTCGATTGCATTCATTCTCCTTTGAACTGC
1206417 TGTTTCGATTGCATTCATT
1 TGTTTCGATTGCATTCATT
1206436 TGCTTGCAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
33 66 0.86
35 1 0.01
36 10 0.13
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.50
Consensus pattern (33 bp):
TGTTTCGATTGCATTCATTCTCCTTTGAACTGC
Found at i:1206893 original size:62 final size:62
Alignment explanation
Indices: 1206793--1206922 Score: 170
Period size: 62 Copynumber: 2.1 Consensus size: 62
1206783 AAGAATGCAA
* * * * * *
1206793 GAAATGCAATGCAATCTTATGCAATGACACGTAGAAAGCTTAGGTGGCAGCAAATTAAATAT
1 GAAATCCAATGCAATCTAATGCAATGACACCTAAAAAGCTTAGGTGACAGCAAATTAAACAT
* ** *
1206855 GAAATCCAATGCAATGTAATGCAATGATGCCTAAAAAGCTTAGGTGACAGCAAATTAAGCAT
1 GAAATCCAATGCAATCTAATGCAATGACACCTAAAAAGCTTAGGTGACAGCAAATTAAACAT
1206917 GAAATC
1 GAAATC
1206923 ACCAAATTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (62 bp):
GAAATCCAATGCAATCTAATGCAATGACACCTAAAAAGCTTAGGTGACAGCAAATTAAACAT
Found at i:1207013 original size:13 final size:13
Alignment explanation
Indices: 1206992--1207035 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1206982 TAATTAACTA
1206992 ATTTTTTTATT-T
1 ATTTTTTTATTAT
*
1207004 TTTATTTTTATTAT
1 ATT-TTTTTATTAT
1207018 ATTTTTTTATTA-
1 ATTTTTTTATTAT
1207030 ATTTTT
1 ATTTTT
1207036 AATGTCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 8 0.29
13 17 0.61
14 3 0.11
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:1207589 original size:43 final size:42
Alignment explanation
Indices: 1207521--1207617 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 42
1207511 TTCTCCCGGA
* * *
1207521 TCAAAGCCAACAGGTAGATAAAAGGTGAAAAAGTCTCTAGGG
1 TCAAAGCCGACAAGTAGATAAAAGGTAAAAAAGTCTCTAGGG
*
1207563 TCAAAGCCGACAAGTAGACTCAAAGGTAAAAAAGTCTCTAGGG
1 TCAAAGCCGACAAGTAGA-TAAAAGGTAAAAAAGTCTCTAGGG
*
1207606 TCAAAGTCGACA
1 TCAAAGCCGACA
1207618 GACAAACTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 16 0.33
43 33 0.67
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (42 bp):
TCAAAGCCGACAAGTAGATAAAAGGTAAAAAAGTCTCTAGGG
Found at i:1207697 original size:42 final size:42
Alignment explanation
Indices: 1207594--1208522 Score: 535
Period size: 42 Copynumber: 22.0 Consensus size: 42
1207584 AAAGGTAAAA
* * * * * * *
1207594 AAGTCTCTAGGGTCAAAGTCGACAGACAAACTTAAGGGTAAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GGTGAGG
* * * **
1207637 GAGTCTTCAGGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* *
1207679 CAGTCTCCAAGGTCAAAGCCGATAGGCAGACTT-AGG-GTAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTG-AGG
* * * * * * *
1207720 AAAGTCTCTAGGGTTAAAGTCGACTAGGAAGACTTGAGATAAGG
1 -AAGTCTCCAAGGTCAAAGCCGAC-AGGCAGACTTGAGGTGAGG
* * * * ** *
1207764 TAGTCT-CTAGGATCAAAGCCGACAGACAAACTAAAGGT-AGAA
1 AAGTCTCCAAGG-TCAAAGCCGACAGGCAGACTTGAGGTGAG-G
* * * * *
1207806 AAGTCTCTAGGGTCAAAGCCGACAGACAGACTTAAGATGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* * * **
1207848 CAA-TCTCTAAGGTC-AAGCCGACAGACAGGCTAAAGGT-AGG
1 -AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* * *
1207888 AAAATCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* * * ** * * *
1207931 CAGTCTCCAAGGTCAAAGCTGATAAACAGAC-TAAGGGTAAGA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GGTGAGG
* * *
1207973 AAGTCTCCAAGGTCAAAGCCAACAGACAGACTTGAGATGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* * * * *
1208015 CAA-TCT-CTAGAGTCAAAGCCGACAAGTAGAC-TGAAGGTAAGA
1 -AAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTTG-AGGTGAGG
* * * **
1208057 AAGTCTCCAAGGTCAAAGCCAACAGGCAAAC-TGAGAGTAAAA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAG-GTGAGG
* * * * *
1208099 AAGTCTCCAGGGTCAAAGCCGACATGCAGACATAAGGTTAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* * * * *
1208141 CAGTCTCCAAGGTCAAAGCCGACAGGTAGAC-AGAGGGTAAGA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GGTGAGG
* * * *
1208183 AAGTTTACAGGGTCAAAGCCGACTGGCAGACTTGAGGTGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* * * * **
1208225 CAGTCTCTAAGGTCAAAGCCGATAGGCAGAC-TGAGGGTAAAAA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GGT-GAGG
* * ** * *
1208268 AAGTCTCTAGGGTCAAAGCTAACAGGTAGACTTGAGGTGATG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
* ** * *
1208310 AAGTCTTCAAGGTCAAAATCGACAGGCAGAC-TGAGGATAAGA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGG-TGAGG
* * * * * *
1208352 AAGTTTCCAAGGTCAAAGTCGATAGGCAAAC-TGAGGGTAAGAA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GGTGAG-G
* *
1208395 AAGTTTCCAAGGTCAAAGCTGACAAGG-AGACTTGAGGTGAGG
1 AAGTCTCCAAGGTCAAAGCCGAC-AGGCAGACTTGAGGTGAGG
* * * * * *
1208437 CAGTCTCCAAGGTCAAAGTCGACAGGTAGAC-TAAGGGTAAGA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GGTGAGG
* * ***
1208479 AAGTCTCTAAGGTCAAAGCCGATAAATAGACTTGAGGTGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
1208521 AA
1 AA
1208523 AGTTTGACTA
Statistics
Matches: 679, Mismatches: 172, Indels: 71
0.74 0.19 0.08
Matches are distributed among these distances:
40 6 0.01
41 62 0.09
42 463 0.68
43 134 0.20
44 14 0.02
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.17
Consensus pattern (42 bp):
AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGG
Found at i:1208335 original size:169 final size:168
Alignment explanation
Indices: 1208058--1208369 Score: 408
Period size: 169 Copynumber: 1.9 Consensus size: 168
1208048 AAGGTAAGAA
*
1208058 AGTCTCCAAGGTCAAAGCCAACAGGCAAACTGAGAGTAAAAAAGTCTCCAGGGTCAAAGCCGACA
1 AGTCTCCAAGGTCAAAGCCAACAGGCAAACTGAGAGTAAAAAAGTCTCCAGGGTCAAAGCCAACA
* * * * * *
1208123 TGCAGACATAAGGTTAGGCAGTCTCCAAGGTCAAAGCCGACAGGTAGACAGAGGGTAAGAAAGTT
66 GGCAGACATAAGGTGAGGAAGTCTCCAAGGTCAAAACCGACAGGCAGACAGAGGATAAGAAAGTT
*
1208188 TACAGGGTCAAAGCCGACTGGCAGACTTGAGGTGAGGC
131 TACAAGGTCAAAGCCGACTGGCAGACTTGAGGTGAGGC
* * * * * * *
1208226 AGTCTCTAAGGTCAAAGCCGATAGGCAGACTGAGGGTAAAAAAAGTCTCTAGGGTCAAAGCTAAC
1 AGTCTCCAAGGTCAAAGCCAACAGGCAAACTGAGAGT-AAAAAAGTCTCCAGGGTCAAAGCCAAC
* * * * * * *
1208291 AGGTAGACTTGAGGTGATGAAGTCTTCAAGGTCAAAATCGACAGGCAGACTGAGGATAAGAAAGT
65 AGGCAGACATAAGGTGAGGAAGTCTCCAAGGTCAAAACCGACAGGCAGACAGAGGATAAGAAAGT
*
1208356 TTCCAAGGTCAAAG
130 TTACAAGGTCAAAG
1208370 TCGATAGGCA
Statistics
Matches: 120, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
168 32 0.27
169 88 0.73
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.17
Consensus pattern (168 bp):
AGTCTCCAAGGTCAAAGCCAACAGGCAAACTGAGAGTAAAAAAGTCTCCAGGGTCAAAGCCAACA
GGCAGACATAAGGTGAGGAAGTCTCCAAGGTCAAAACCGACAGGCAGACAGAGGATAAGAAAGTT
TACAAGGTCAAAGCCGACTGGCAGACTTGAGGTGAGGC
Found at i:1208527 original size:127 final size:126
Alignment explanation
Indices: 1207551--1208525 Score: 621
Period size: 127 Copynumber: 7.7 Consensus size: 126
1207541 AAAGGTGAAA
* * * * * * * * *
1207551 AAGTCTCTAGGGTCAAAGCCGACAAGTAGACTCAAAGGTAAAAAAGTCTCTAGGGTCAAAGTCGA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGA
* * * * * * * * **
1207616 CAGACAAACTTAAGGGTAAGG-GAGTCTTCAGGGTCAAAGCCGACAGGCAGACTTGAAATGAGG
65 TAGGCAGAC-TGA-GGTAAGGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTGAGGTGAGG
* * * * * * * *
1207679 CAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTAGGGTAGGAAAGTCTCTAGGGTTAAAGTCGAC
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGA-
* * * * ** * ** *
1207744 TAGGAAGACTTGAGATAAGG-TAGTCT-CTAGGATCAAAGCCGACAGACAAACTAAAGGT-AGAA
65 TAGGCAGAC-TGAGGTAAGGAAAGTCTCCAAGG-TCAAAGCCGACAGGTAGACTTGAGGTGAG-G
* * * * * * *
1207806 AAGTCTCTAGGGTCAAAGCCGACAGACAGACTTAA-GATGAGGCAA-TCTCTAAGGTC-AAGCCG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGT-AAGAAAGTCTCCAAGGTCAAAGCCG
* * * * * * * *
1207868 ACAGACAGGCTAAAGGT-AGGAAAATCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGATGAGG
64 ATAGGCAGACT-GAGGTAAGGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTGAGGTGAGG
* * * ** * *
1207931 CAGTCTCCAAGGTCAAAGCTGATAAACAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCAAC
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAT
* * * * * * * *
1207996 AGACAGACTTGAGATGAGGCAA-TCT-CTAGAGTCAAAGCCGACAAGTAGAC-TGAAGGTAAGA
66 AGGCAGAC-TGAGGTAAGGAAAGTCTCCAAG-GTCAAAGCCGACAGGTAGACTTG-AGGTGAGG
* * * * * * *
1208057 AAGTCTCCAAGGTCAAAGCCAACAGGCAAACTGAGAGTAAAAAAGTCTCCAGGGTCAAAGCCGAC
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAT
* * * * * * *
1208122 ATGCAGACATAAGGTTAGG-CAGTCTCCAAGGTCAAAGCCGACAGGTAGAC-AGAGGGTAAGA
66 AGGCAGAC-TGAGGTAAGGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTGA-GGTGAGG
* * * * * * ** *
1208183 AAGTTTACAGGGTCAAAGCCGACTGGCAGACT-TGAGGTGAGGCAGTCTCTAAGGTCAAAGCCGA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAG-GGTAAGAAAGTCTCCAAGGTCAAAGCCGA
** * * ** *
1208247 TAGGCAGACTGAGGGTAAAAAAAGTCTCTAGGGTCAAAGCTAACAGGTAGACTTGAGGTGATG
65 TAGGCAGACTGA-GGTAAGGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTGAGGTGAGG
* ** * * * *
1208310 AAGTCTTCAAGGTCAAAATCGACAGGCAGACTGAGGATAAGAAAGTTTCCAAGGTCAAAGTCGAT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAT
* * * *
1208375 AGGCAAACTGAGGGTAAGAAAAGTTTCCAAGGTCAAAGCTGACAAGG-AGACTTGAGGTGAGG
66 AGGCAGACTGA-GGTAAGGAAAGTCTCCAAGGTCAAAGCCGAC-AGGTAGACTTGAGGTGAGG
* * * *
1208437 CAGTCTCCAAGGTCAAAGTCGACAGGTAGACTAAGGGTAAGAAAGTCTCTAAGGTCAAAGCCGAT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAT
*** *
1208502 AAATAGACTTGAGGTGAGGAAAGT
66 AGGCAGAC-TGAGGTAAGGAAAGT
1208526 TTGACTAGGT
Statistics
Matches: 658, Mismatches: 163, Indels: 53
0.75 0.19 0.06
Matches are distributed among these distances:
124 11 0.02
125 79 0.12
126 214 0.33
127 304 0.46
128 50 0.08
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (126 bp):
AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAT
AGGCAGACTGAGGTAAGGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTGAGGTGAGG
Found at i:1208630 original size:47 final size:47
Alignment explanation
Indices: 1208513--1208748 Score: 302
Period size: 47 Copynumber: 5.1 Consensus size: 47
1208503 AATAGACTTG
* *
1208513 AGGTGAGGAAAGTTTGACTAGGTCCTAACGCCAATACAGTCAAACAA
1 AGGTGAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAA
*
1208560 A-GTGAGAAAAGTTTGACCAGGTCCTAACGCCAATATAGTCAAACAA
1 AGGTGAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAA
* * *
1208606 AGGTGAGAAAAGTTTGACTAGGTCCTAAAGCCAATACAGCCAAACAA
1 AGGTGAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAA
* * *
1208653 GGGTG-GAAAGAGTTTGACCAAGTCCTAACGCTAATACAG-CTAAACAA
1 AGGTGAGAAA-AGTTTGACCAGGTCCTAACGCCAATACAGTC-AAACAA
* * *
1208700 AGGTG-GAAAGAATTTGACCAGGTCCTAATGCCAATACAGTTAAA-AA
1 AGGTGAGAAA-AGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAA
1208746 AGG
1 AGG
1208749 AAAAATTTAA
Statistics
Matches: 167, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
46 53 0.32
47 114 0.68
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (47 bp):
AGGTGAGAAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAA
Found at i:1209040 original size:90 final size:88
Alignment explanation
Indices: 1208885--1209215 Score: 308
Period size: 89 Copynumber: 3.7 Consensus size: 88
1208875 CCAGAATAGA
* * * * * *
1208885 CAAG-TTT-TGATGCATCAATACTATCTAGTGATTGGATAAAGGAAATATGATTAAGATTCTGTG
1 CAAGTTTTGTGATGCATCAATACCATCTAGTGGTTGGGTAAAGGGAATATGATTAAGAATGTGTG
* *
1208948 GGTTACACCTTACCCCAAGGAAAT
66 GGTTGCACCTTGCCCC-AGGAAAT
* * * *
1208972 CAAATTTTGTGATGCATCAATGCCATCTAGTGGTTGGGTAAAAGGGGATATGATTAAGAATGTAT
1 CAAGTTTTGTGATGCATCAATACCATCTAGTGGTTGGGT-AAAGGGAATATGATTAAGAATGTGT
** * *
1209037 GGGTTGCACCTTTGTTCCATGAGAT
65 GGGTTGCACC-TTGCCCCAGGAAAT
* * * ** *
1209062 CAAGTTTTGTGATGCATGAATACCATCTAGTGGTTAGGTGAAGGGAATATGATTGGGAATGTGTT
1 CAAGTTTTGTGATGCATCAATACCATCTAGTGGTTGGGTAAAGGGAATATGATTAAGAATGTGTG
* *
1209127 GGCTGCACCTTGCCCCTAGGAAAC
66 GGTTGCACCTTGCCCC-AGGAAAT
* * * * * * *
1209151 CAAGCTTTGTGATGCATCAATCCCATCTAAG-GGCTGAGTGAAGGGGATATGATTAGGAAATGTG
1 CAAGTTTTGTGATGCATCAATACCATCT-AGTGGTTGGGTAAAGGGAATATGATTAAG-AATGTG
1209215 T
64 T
1209216 TTTCCTTGAA
Statistics
Matches: 197, Mismatches: 40, Indels: 11
0.79 0.16 0.04
Matches are distributed among these distances:
87 3 0.02
88 8 0.04
89 104 0.53
90 78 0.40
91 4 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (88 bp):
CAAGTTTTGTGATGCATCAATACCATCTAGTGGTTGGGTAAAGGGAATATGATTAAGAATGTGTG
GGTTGCACCTTGCCCCAGGAAAT
Found at i:1219621 original size:20 final size:21
Alignment explanation
Indices: 1219589--1219627 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1219579 AGGAAGTTAA
*
1219589 AGTTTTCTAAATTTTAAAATT
1 AGTTTTCTAAATTTCAAAATT
1219610 AGTTTT-TAAATTTCAAAA
1 AGTTTTCTAAATTTCAAAA
1219628 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (21 bp):
AGTTTTCTAAATTTCAAAATT
Found at i:1219628 original size:21 final size:21
Alignment explanation
Indices: 1219589--1219631 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1219579 AGGAAGTTAA
*
1219589 AGTTTTCTAAATTTTAAAATT
1 AGTTTTCTAAATTTAAAAATT
1219610 AGTTTT-TAAATTTCAAAAATT
1 AGTTTTCTAAATTT-AAAAATT
1219631 A
1 A
1219632 CATTTTATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (21 bp):
AGTTTTCTAAATTTAAAAATT
Found at i:1220430 original size:15 final size:14
Alignment explanation
Indices: 1220410--1220448 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
1220400 ATCCCAAGTA
*
1220410 TTTTCTTTCTTTTT
1 TTTTCTTTCTCTTT
1220424 CTTTTCTTTCTCTTT
1 -TTTTCTTTCTCTTT
1220439 TTTT-TTTCTC
1 TTTTCTTTCTC
1220449 AACTTGCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 4 0.17
15 13 0.57
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTCTTT
Found at i:1220431 original size:11 final size:11
Alignment explanation
Indices: 1220410--1220447 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1220400 ATCCCAAGTA
1220410 TTTTC-TTTCT
1 TTTTCTTTTCT
1220420 TTTTCTTTTCT
1 TTTTCTTTTCT
* *
1220431 TTCTCTTTTTT
1 TTTTCTTTTCT
1220442 TTTTCT
1 TTTTCT
1220448 CAACTTGCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:1220999 original size:33 final size:33
Alignment explanation
Indices: 1220962--1221030 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
1220952 TGCTACTTTT
* *
1220962 ATTCTCCTTTAAACTGCTGTTGCGATTACATTC
1 ATTCTCCTTTAAACTACTGTTGCAATTACATTC
* * * *
1220995 ATTCTCTTTTGAACTACTGTTTCAATTGCATTC
1 ATTCTCCTTTAAACTACTGTTGCAATTACATTC
1221028 ATT
1 ATT
1221031 TGCTTGCAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (33 bp):
ATTCTCCTTTAAACTACTGTTGCAATTACATTC
Found at i:1221604 original size:8 final size:8
Alignment explanation
Indices: 1221593--1221633 Score: 57
Period size: 9 Copynumber: 5.0 Consensus size: 8
1221583 TAATTAAATA
1221593 ATTTTTTT
1 ATTTTTTT
1221601 A-TTTTTT
1 ATTTTTTT
1221608 ATTTTTATT
1 ATTTTT-TT
1221617 ATTTTTTT
1 ATTTTTTT
1221625 ATTATTTTT
1 ATT-TTTTT
1221634 TAATGTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.23
8 10 0.33
9 13 0.43
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:1221607 original size:7 final size:7
Alignment explanation
Indices: 1221595--1221635 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
1221585 ATTAAATAAT
1221595 TTTTTTA
1 TTTTTTA
1221602 TTTTTTA
1 TTTTTTA
1221609 -TTTTTA
1 TTTTTTA
1221615 TTATTTT-
1 TT-TTTTA
*
1221622 TTTATTA
1 TTTTTTA
1221629 TTTTTTA
1 TTTTTTA
1221636 ATGTCAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 9 0.31
7 16 0.55
8 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:1221618 original size:16 final size:15
Alignment explanation
Indices: 1221593--1221633 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 15
1221583 TAATTAAATA
1221593 ATTTTTTTATTTTTT
1 ATTTTTTTATTTTTT
1221608 ATTTTTATTATTTTTTT
1 ATTTTT-TTA-TTTTTT
1221625 ATTATTTTT
1 ATT-TTTTT
1221634 TAATGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 3 0.13
17 11 0.48
18 3 0.13
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTTATTTTTT
Found at i:1221625 original size:11 final size:11
Alignment explanation
Indices: 1221593--1221634 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
1221583 TAATTAAATA
1221593 ATTTTTTTATTT
1 ATTTTTTTA-TT
*
1221605 TTTATTTTTATT
1 ATT-TTTTTATT
1221617 ATTTTTTTATT
1 ATTTTTTTATT
1221628 ATTTTTT
1 ATTTTTT
1221635 AATGTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 15 0.56
12 6 0.22
13 6 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
ATTTTTTTATT
Found at i:1222278 original size:50 final size:50
Alignment explanation
Indices: 1222223--1222396 Score: 145
Period size: 50 Copynumber: 3.5 Consensus size: 50
1222213 TAGGTACTAG
* * *
1222223 CTAATATGGACTTTGACTTTATAGGACTTTACCTTCCCATCAGGTGCCAA
1 CTAATATAGACTTTGACTTTATAGGACTTGACCTTCCCATCAAGTGCCAA
* * * * **
1222273 TTAATACAGACTTTGACTCTATAGGACTTGATCTTCCTTTCAAGTGCCAA
1 CTAATATAGACTTTGACTTTATAGGACTTGACCTTCCCATCAAGTGCCAA
* * * * * *
1222323 CTAATGTAGATTTTGACTTTA-AAGAGCTTGA-CTTCTCTATACAAGTGCTAG
1 CTAATATAGACTTTGACTTTATAGGA-CTTGACCTTC-CCAT-CAAGTGCCAA
* * *
1222374 CTACTGTGGACTTTGACTTTATA
1 CTAATATAGACTTTGACTTTATA
1222397 AGATTTAACC
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
49 7 0.07
50 65 0.66
51 26 0.26
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (50 bp):
CTAATATAGACTTTGACTTTATAGGACTTGACCTTCCCATCAAGTGCCAA
Found at i:1223115 original size:37 final size:36
Alignment explanation
Indices: 1222973--1223115 Score: 126
Period size: 36 Copynumber: 3.9 Consensus size: 36
1222963 TGCAGGTTTT
* * *
1222973 TGAAATATCCTTAATAA-AAGCTTTGAAAGTTTCTAA
1 TGAAATATCCTTAA-AAGAGGCTTTAAAAGTTTTTAA
** * *
1223009 TGAAACGTCCTTAAAAGAGGCATTAGAAGTTTTTAA
1 TGAAATATCCTTAAAAGAGGCTTTAAAAGTTTTTAA
* * *** *
1223045 TGAAATATCCTCAAAAGAGGCTTTGGATTTTTTTTTA
1 TGAAATATCCTTAAAAGAGGCTTT-AAAAGTTTTTAA
* *
1223082 TGAAATGTCCTTAAGAGAGGCTTTAAAAGTTTTT
1 TGAAATATCCTTAAAAGAGGCTTTAAAAGTTTTT
1223116 GATAAAATGC
Statistics
Matches: 81, Mismatches: 24, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
35 2 0.02
36 52 0.64
37 27 0.33
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (36 bp):
TGAAATATCCTTAAAAGAGGCTTTAAAAGTTTTTAA
Found at i:1223387 original size:38 final size:35
Alignment explanation
Indices: 1223345--1223435 Score: 101
Period size: 38 Copynumber: 2.5 Consensus size: 35
1223335 AAAGTTCTGC
**
1223345 AATATCCTTAAGAGAGGCTTCAGAAGTTTTTTTGATGA
1 AATAT-CTTAAGAGAGGCTTCA-AAAATTTTTT-ATGA
* *
1223383 AATATTCTCAAGAGAGGCTTTAAAAATTTTTTATGA
1 AATA-TCTTAAGAGAGGCTTCAAAAATTTTTTATGA
1223419 AATATCTTCAAGAGAGG
1 AATATCTT-AAGAGAGG
1223436 TTTTAAAGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
35 3 0.07
36 16 0.35
37 8 0.17
38 18 0.39
39 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (35 bp):
AATATCTTAAGAGAGGCTTCAAAAATTTTTTATGA
Found at i:1223420 original size:36 final size:36
Alignment explanation
Indices: 1223285--1223484 Score: 146
Period size: 36 Copynumber: 5.7 Consensus size: 36
1223275 TGAGGCATCT
* *
1223285 TCAAGAGAGGCTTTAAAAGTTTTTAAT-AAAGTATCC
1 TCAAGAGAGGCTTTAAAAATTTTTTATGAAA-TATCC
* * * * *
1223321 -CAAGAAAGG-TTTTAAAA---GTTCTGCAATATCC
1 TCAAGAGAGGCTTTAAAAATTTTTTATGAAATATCC
* * ** *
1223352 TTAAGAGAGGCTTCAGAAGTTTTTTTGATGAAATATTC
1 TCAAGAGAGGCTTTA-AAAATTTTTT-ATGAAATATCC
*
1223390 TCAAGAGAGGCTTTAAAAATTTTTTATGAAATATCT
1 TCAAGAGAGGCTTTAAAAATTTTTTATGAAATATCC
* ***
1223426 TCAAGAGAGG-TTTTAAAGGGTTTTATTGAAATATCC
1 TCAAGAGAGGCTTTAAAAATTTTTTA-TGAAATATCC
*
1223462 TCAA-AAAGGCTTTAAAAATTTTT
1 TCAAGAGAGGCTTTAAAAATTTTT
1223485 AATCGACATC
Statistics
Matches: 121, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
31 7 0.06
32 9 0.07
33 2 0.02
34 8 0.07
35 23 0.19
36 41 0.34
37 10 0.08
38 21 0.17
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TCAAGAGAGGCTTTAAAAATTTTTTATGAAATATCC
Found at i:1237358 original size:107 final size:107
Alignment explanation
Indices: 1237172--1237384 Score: 331
Period size: 107 Copynumber: 2.0 Consensus size: 107
1237162 AAAATGAAAA
**
1237172 ATAATGTACAAAAATGGGGGAAGGGATTATAATTAAATAATGACAAAAGACAAAGGAAAACTGAA
1 ATAATGTACAAAAATGGGGGAAAAGATTATAATTAAATAATGACAAAAGACAAAGGAAAACTGAA
*
1237237 AACTAGATAAGATGTGGCTAGTCCCTAATAGAGTCACCAAGG
66 AACCAGATAAGATGTGGCTAGTCCCTAATAGAGTCACCAAGG
*
1237279 ATAATGTACAAAAAAT-GGGGAAAAGATTATAATTAAATAATGACCAAAGACCAAA-GAAAACTG
1 ATAATGTAC-AAAAATGGGGGAAAAGATTATAATTAAATAATGACAAAAGA-CAAAGGAAAACTG
* * *
1237342 AAAACCGGATAAGATGTGGCTAGTCCCTGATGGAGTCACCAAG
64 AAAACCAGATAAGATGTGGCTAGTCCCTAATAGAGTCACCAAG
1237385 TTGTCCGCCT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 87 0.90
108 10 0.10
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (107 bp):
ATAATGTACAAAAATGGGGGAAAAGATTATAATTAAATAATGACAAAAGACAAAGGAAAACTGAA
AACCAGATAAGATGTGGCTAGTCCCTAATAGAGTCACCAAGG
Found at i:1237593 original size:17 final size:17
Alignment explanation
Indices: 1237573--1237607 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1237563 AAAAAGTGTA
1237573 AGGAGAGAAAACCAAAC
1 AGGAGAGAAAACCAAAC
*
1237590 AGGAGAGAAAATCAAAC
1 AGGAGAGAAAACCAAAC
1237607 A
1 A
1237608 CTTATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.23, T:0.03
Consensus pattern (17 bp):
AGGAGAGAAAACCAAAC
Found at i:1243551 original size:13 final size:13
Alignment explanation
Indices: 1243533--1243559 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1243523 ACATGCTGCT
1243533 TTGTATCGATACA
1 TTGTATCGATACA
1243546 TTGTATCGATACA
1 TTGTATCGATACA
1243559 T
1 T
1243560 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1243592 original size:21 final size:20
Alignment explanation
Indices: 1243545--1243597 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
1243535 GTATCGATAC
**
1243545 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGGACA
*
1243565 A-TGTATCAATACATGGACAA
1 ATTGTATCGATACATGGAC-A
1243585 ATTGTATCGATAC
1 ATTGTATCGATAC
1243598 GTGAAATTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 14 0.52
20 3 0.11
21 10 0.37
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:1245988 original size:20 final size:20
Alignment explanation
Indices: 1245963--1246017 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1245953 GCCAAGGAAA
*
1245963 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTATCTG
** *
1245983 TGTATCGATACATGGATCTT
1 TGTATCGATACATTTATCTG
1246003 TGTATCGATACATTT
1 TGTATCGATACATTT
1246018 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTATCTG
Found at i:1248417 original size:51 final size:52
Alignment explanation
Indices: 1248361--1248459 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
1248351 AATTCTCCTC
* * * *
1248361 AATCGGGGATATTCCATCTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
1248412 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1248460 TTTCACAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 30 0.70
52 13 0.30
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (52 bp):
AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
Found at i:1248503 original size:28 final size:30
Alignment explanation
Indices: 1248467--1248543 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
1248457 TTTTTTCACA
* * *
1248467 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACCTTCG
1248495 ATCGGGGATACTCCAACCCCGTTACCTTCG
1 ATCGGGGATACTCCAACCCCGTTACCTTCG
1248525 A--GGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1248544 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 40 0.91
29 3 0.07
30 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACCTTCG
Found at i:1253800 original size:13 final size:13
Alignment explanation
Indices: 1253782--1253810 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1253772 ACAATATTCC
1253782 TTGTATCGATACA
1 TTGTATCGATACA
1253795 TTGTATCGATACA
1 TTGTATCGATACA
1253808 TTG
1 TTG
1253811 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1256285 original size:13 final size:13
Alignment explanation
Indices: 1256267--1256293 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1256257 ACATGCTGCT
1256267 TTGTATCGATACA
1 TTGTATCGATACA
1256280 TTGTATCGATACA
1 TTGTATCGATACA
1256293 T
1 T
1256294 GTTTAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1256305 original size:19 final size:19
Alignment explanation
Indices: 1256281--1256332 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1256271 ATCGATACAT
*
1256281 TGTATCGATACATGTTTAA
1 TGTATCGATACATGTTCAA
1256300 TGTATCGATACATGTTCAA
1 TGTATCGATACATGTTCAA
1256319 TGTATCGATACATG
1 TGTATCGATACATG
1256333 AACAAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAA
Found at i:1256426 original size:33 final size:32
Alignment explanation
Indices: 1256382--1256448 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
1256372 CTATCACTAT
1256382 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
*
1256415 TTGTATTGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
1256448 T
1 T
1256449 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:1257468 original size:52 final size:52
Alignment explanation
Indices: 1257390--1257491 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
1257380 AGAGAATGAA
1257390 TCAAAAACATGTCAATGAAGATGTTAATGAACTTATAATATCAAAGCATATT
1 TCAAAAACATGTCAATGAAGATGTTAATGAACTTATAATATCAAAGCATATT
* *
1257442 TCAAAAACATGTTAAT-AAGGATGTTAATGAGCTTATAATATCAAAGCATA
1 TCAAAAACATGTCAATGAA-GATGTTAATGAACTTATAATATCAAAGCATA
1257492 GGATGGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.04
52 45 0.96
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (52 bp):
TCAAAAACATGTCAATGAAGATGTTAATGAACTTATAATATCAAAGCATATT
Found at i:1259160 original size:21 final size:21
Alignment explanation
Indices: 1259117--1259160 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1259107 GAAGCAATGG
* * **
1259117 TTGGATGAAAGAATGTATTTT
1 TTGGATGAAAAAATGCAACTT
1259138 TTGGATGAAAAAATGCAACTT
1 TTGGATGAAAAAATGCAACTT
1259159 TT
1 TT
1259161 AATAACCAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (21 bp):
TTGGATGAAAAAATGCAACTT
Found at i:1262111 original size:12 final size:12
Alignment explanation
Indices: 1262094--1262119 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1262084 ATCTTTCATT
1262094 CAACACACTGTA
1 CAACACACTGTA
1262106 CAACACACTGTA
1 CAACACACTGTA
1262118 CA
1 CA
1262120 GAAAAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.35, G:0.08, T:0.15
Consensus pattern (12 bp):
CAACACACTGTA
Found at i:1263492 original size:15 final size:16
Alignment explanation
Indices: 1263460--1263501 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1263450 TGAATCCGAC
1263460 AAAACCCAAACTCAAA
1 AAAACCCAAACTCAAA
*
1263476 AAAACTCAAAC-CTAAA
1 AAAACCCAAACTC-AAA
*
1263492 AAAATCCAAA
1 AAAACCCAAA
1263502 TGGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.64, C:0.26, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAACCCAAACTCAAA
Found at i:1263746 original size:22 final size:22
Alignment explanation
Indices: 1263696--1263748 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
1263686 ATATATGATG
* *
1263696 AAATAATAATTTATCAAAAAGT
1 AAATTATATTTTATCAAAAAGT
*
1263718 AAATTATATTTTATCAAGAAGT
1 AAATTATATTTTATCAAAAAGT
*
1263740 AAGTTATAT
1 AAATTATAT
1263749 CAGGAGCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (22 bp):
AAATTATATTTTATCAAAAAGT
Found at i:1266364 original size:2 final size:2
Alignment explanation
Indices: 1266357--1266445 Score: 101
Period size: 2 Copynumber: 45.5 Consensus size: 2
1266347 GACAATGCTT
1266357 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
1266398 TA -A CA CA TA TA TA TA AA TA TA CA CA CA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1266439 TA TA TA T
1 TA TA TA T
1266446 GTACATACAC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
1 2 0.03
2 78 0.98
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1266529 original size:2 final size:2
Alignment explanation
Indices: 1266516--1266562 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1266506 GTTTCAGTTT
*
1266516 AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1266558 AC AC A
1 AC AC A
1266563 TATATATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1266567 original size:2 final size:2
Alignment explanation
Indices: 1266562--1266592 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1266552 ACACACACAC
1266562 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
1266593 CATACACATA
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:1267039 original size:187 final size:187
Alignment explanation
Indices: 1266719--1267096 Score: 702
Period size: 187 Copynumber: 2.0 Consensus size: 187
1266709 TCTTGTAATT
1266719 TTTAGGCTCTCCTTATATTAAATTTTATTAATTAAATTATGGATTGCATGTAATGCAATTATATT
1 TTTAGGCTCTCCTTATATTAAATTTTATTAATTAAATTATGGATTGCATGTAATGCAATTATATT
1266784 ATCACATCCTATTAATAAATAATTAAATAATTTTTAAAATTTTTAAAATTAATTAATAAAAATTA
66 ATCACATCCTATTAATAAATAATTAAATAATTTTTAAAATTTTTAAAATTAATTAATAAAAATTA
1266849 TATCTTTTGTTGAGTTAGTGTCATGAGTTATTAGACTTTTTAAATCATATTAACACC
131 TATCTTTTGTTGAGTTAGTGTCATGAGTTATTAGACTTTTTAAATCATATTAACACC
* * * *
1266906 TTTATGCTCTCCTTATATTAATTTTTGTTAATTAAATTATGGATTGCATTTAATGCAATTATATT
1 TTTAGGCTCTCCTTATATTAAATTTTATTAATTAAATTATGGATTGCATGTAATGCAATTATATT
*
1266971 ATCACATCTTATTAATAAATAATTAAATAATTTTTAAAATTTTTAAAATTAATTAATAAAAATTA
66 ATCACATCCTATTAATAAATAATTAAATAATTTTTAAAATTTTTAAAATTAATTAATAAAAATTA
*
1267036 TATCTTTTGTTGAGTTAGTGTCATGAGTTATTAGACTTTTTAAATCATATTAACACT
131 TATCTTTTGTTGAGTTAGTGTCATGAGTTATTAGACTTTTTAAATCATATTAACACC
1267093 TTTA
1 TTTA
1267097 AATCATATTT
Statistics
Matches: 185, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 185 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (187 bp):
TTTAGGCTCTCCTTATATTAAATTTTATTAATTAAATTATGGATTGCATGTAATGCAATTATATT
ATCACATCCTATTAATAAATAATTAAATAATTTTTAAAATTTTTAAAATTAATTAATAAAAATTA
TATCTTTTGTTGAGTTAGTGTCATGAGTTATTAGACTTTTTAAATCATATTAACACC
Found at i:1268045 original size:66 final size:67
Alignment explanation
Indices: 1267909--1268045 Score: 149
Period size: 66 Copynumber: 2.1 Consensus size: 67
1267899 AAAATTTATC
* * *
1267909 AATTATTTTAAATATCAATATATAATATTATAATAATAAATTATTTAAAAATTAATTTTACATAA
1 AATTATTTTAAATATCAATATATAATATTATAATAATAAATTATTTAAAAATAAATATTACACAA
1267974 CA
66 CA
* * *
1267976 AATTAATTTTATATAT-AA-ATATAA-ATTGTAATAAATAAA-TATATTAAAAATAACATATTAT
1 AATT-ATTTTAAATATCAATATATAATATTATAAT-AATAAATTAT-TTAAAAATAA-ATATTAC
1268037 ACAA-A
62 ACAACA
1268042 AATT
1 AATT
1268046 TACTTAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
65 10 0.17
66 26 0.43
67 14 0.23
68 10 0.17
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (67 bp):
AATTATTTTAAATATCAATATATAATATTATAATAATAAATTATTTAAAAATAAATATTACACAA
CA
Found at i:1271929 original size:28 final size:28
Alignment explanation
Indices: 1271897--1271952 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1271887 ATGCTTAAAA
1271897 ATCAATACCTTAATTTAAATCTTAATCT
1 ATCAATACCTTAATTTAAATCTTAATCT
1271925 ATCAATACCTTAATTTAAATCTTAATCT
1 ATCAATACCTTAATTTAAATCTTAATCT
1271953 TTATTCGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (28 bp):
ATCAATACCTTAATTTAAATCTTAATCT
Found at i:1272959 original size:36 final size:36
Alignment explanation
Indices: 1272919--1272995 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
1272909 TTTTTACTAA
1272919 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCC
1 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCC
1272955 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCC
1 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCC
1272991 TTAAT
1 TTAAT
1272996 GACCTAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (36 bp):
TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCC
Found at i:1273064 original size:137 final size:137
Alignment explanation
Indices: 1272818--1273096 Score: 531
Period size: 137 Copynumber: 2.0 Consensus size: 137
1272808 GTTTTACTAA
*
1272818 TTAATCCCTAAACTTTTGACATTTATAATTTAGTCCTTAATGACCTAAAATGCATAAACAAACAC
1 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCATAAACAAACAC
1272883 TAAAACATGTCAAAAACACATGGAAATTTTTACTAATTAATCCCTAAACTTTTGAAATTTATAAT
66 TAAAACATGTCAAAAACACATGGAAATTTTTACTAATTAATCCCTAAACTTTTGAAATTTATAAT
1272948 TTAGTCC
131 TTAGTCC
* *
1272955 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCTTATACAAACAC
1 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCATAAACAAACAC
1273020 TAAAACATGTCAAAAACACATGGAAATTTTTACTAATTAATCCCTAAACTTTTGAAATTTATAAT
66 TAAAACATGTCAAAAACACATGGAAATTTTTACTAATTAATCCCTAAACTTTTGAAATTTATAAT
1273085 TTAGTCC
131 TTAGTCC
1273092 TTAAT
1 TTAAT
1273097 GACCTAAAAT
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 139 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (137 bp):
TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCATAAACAAACAC
TAAAACATGTCAAAAACACATGGAAATTTTTACTAATTAATCCCTAAACTTTTGAAATTTATAAT
TTAGTCC
Found at i:1273130 original size:101 final size:101
Alignment explanation
Indices: 1272955--1273147 Score: 368
Period size: 101 Copynumber: 1.9 Consensus size: 101
1272945 AATTTAGTCC
* *
1272955 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCTTATACAAACAC
1 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCATAAACAAACAC
1273020 TAAAACATGTCAAAAACACATGGAAATTTTTACTAA
66 TAAAACATGTCAAAAACACATGGAAATTTTTACTAA
1273056 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCATAAACAAACAC
1 TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCATAAACAAACAC
1273121 TAAAACATGTCAAAAACACATGGAAAT
66 TAAAACATGTCAAAAACACATGGAAAT
1273148 ACACTAAAAC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 90 1.00
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (101 bp):
TTAATCCCTAAACTTTTGAAATTTATAATTTAGTCCTTAATGACCTAAAATGCATAAACAAACAC
TAAAACATGTCAAAAACACATGGAAATTTTTACTAA
Found at i:1273155 original size:31 final size:31
Alignment explanation
Indices: 1273117--1273178 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
1273107 GCATAAACAA
*
1273117 ACACTAAAACATGTCAAAAACACATGGAAAT
1 ACACTAAAACACGTCAAAAACACATGGAAAT
1273148 ACACTAAAACACGTCAAAAACACATGGAAAT
1 ACACTAAAACACGTCAAAAACACATGGAAAT
1273179 TTCAGATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.21, G:0.10, T:0.15
Consensus pattern (31 bp):
ACACTAAAACACGTCAAAAACACATGGAAAT
Found at i:1276641 original size:160 final size:161
Alignment explanation
Indices: 1276267--1276665 Score: 429
Period size: 161 Copynumber: 2.5 Consensus size: 161
1276257 ATAAATATCG
* * * * *
1276267 TAGTTATCAAATATATATAATTTAATAATCAATCAACTTAAAAC-TTTCTAACGCCAATGATATT
1 TAGTTATCTACTATATATAATTTAATAATCAATCAACTTAAAACTTTTTTAACACAAATGATA-T
* * * *
1276331 TGAATTATTAAATACATGGATTAGCCATTAATTAAAATCAAAATTTAAGCCACTAAGAAATGAAA
65 TGAATTATTAAATACAGGGATTAACCATTAATTAAAATCAAAATTTAAGCCACAAAAAAATGAAA
*
1276396 ATAATATTCAATATATATGTTAGAAAAAATCA
130 ATAATATTCAATATATATGTTAGAAAAAAACA
* *
1276428 TAGTTATCTACTATATATAATTTAATAATCAATCAACTTCAAA-TTCCTTTAACACAAATGATAT
1 TAGTTATCTACTATATATAATTTAATAATCAATCAACTTAAAACTT-TTTTAACACAAATGATAT
* ***
1276492 TGACTTATTAAATACAGGGATTAACCATTAATT-AAA-CTTTATTTAAGCC-CAAAAAAATGAAA
65 TGAATTATTAAATACAGGGATTAACCATTAATTAAAATCAAAATTTAAGCCACAAAAAAATGAAA
* * *
1276554 ATAATCTTCAATATATATTTTGTAGAACTAAAAAGA
130 ATAATATTCAATATATA-TGT-TAGAA--AAAAACA
* * * * *
1276590 TTAGCTTATC-A-T-T-TATAATTTAATGATCAATCATCTTGAAACTTTTTTAACACAAGTTATA
1 -TAG-TTATCTACTATATATAATTTAATAATCAATCAACTTAAAACTTTTTTAACACAAATGATA
* *
1276651 TTGTATCATTAAATA
64 TTGAATTATTAAATA
1276666 TTATTAAGTA
Statistics
Matches: 201, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
158 27 0.13
159 12 0.06
160 59 0.29
161 75 0.37
162 19 0.09
163 4 0.02
164 5 0.02
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (161 bp):
TAGTTATCTACTATATATAATTTAATAATCAATCAACTTAAAACTTTTTTAACACAAATGATATT
GAATTATTAAATACAGGGATTAACCATTAATTAAAATCAAAATTTAAGCCACAAAAAAATGAAAA
TAATATTCAATATATATGTTAGAAAAAAACA
Found at i:1280756 original size:40 final size:39
Alignment explanation
Indices: 1280701--1280867 Score: 127
Period size: 40 Copynumber: 3.9 Consensus size: 39
1280691 TTTTTACCCA
*
1280701 AATGTATCGATACATTTTTCAATATATCGATACATGTATG
1 AATGTATCGATACATTCTTCAATATATCGATACAT-TATG
* * **
1280741 AATGTATCGATACATTCTTCAATGTGTTAATACATTATG
1 AATGTATCGATACATTCTTCAATATATCGATACATTATG
* * * *
1280780 TTTTTTTACCTAGATGTATCAATACGTTTTTCAATGTATCGATACATATATG
1 -----------A-ATGTATCGATACATTCTTCAATATATCGATACAT-TATG
1280832 AATGTATCGATACATTCTTCAATATATCGATACATT
1 AATGTATCGATACATTCTTCAATATATCGATACATT
1280868 CTATCTTTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
39 5 0.05
40 60 0.61
41 1 0.01
50 1 0.01
51 28 0.28
52 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (39 bp):
AATGTATCGATACATTCTTCAATATATCGATACATTATG
Found at i:1280764 original size:20 final size:19
Alignment explanation
Indices: 1280701--1280765 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
1280691 TTTTTACCCA
1280701 AATGTATCGATACATTTTTC
1 AATGTATCGATACA-TTTTC
* * *
1280721 AATATATCGATACATGTATG
1 AATGTATCGATACAT-TTTC
1280741 AATGTATCGATACATTCTTC
1 AATGTATCGATACATT-TTC
1280761 AATGT
1 AATGT
1280766 GTTAATACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 2 0.05
20 35 0.95
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (19 bp):
AATGTATCGATACATTTTC
Found at i:1280859 original size:20 final size:20
Alignment explanation
Indices: 1280793--1280869 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
1280783 TTTTACCTAG
* * *
1280793 ATGTATCAATACGTTTTTCA
1 ATGTATCGATACATTCTTCA
* *
1280813 ATGTATCGATACATAT-ATGA
1 ATGTATCGATACAT-TCTTCA
1280833 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
1280853 ATATATCGATACATTCT
1 ATGTATCGATACATTCT
1280870 ATCTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1280865 original size:91 final size:91
Alignment explanation
Indices: 1280691--1280898 Score: 283
Period size: 91 Copynumber: 2.3 Consensus size: 91
1280681 AAAAGTCACA
* *
1280691 TTTTTACCCAAATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCAATACATTTTTCAATATATCGATACATATATGAATGTATCGATACAT
* * *
1280756 TCTTCAATGTGTTAATACATTATGTT
66 TCTTCAATATATCAATACATTATGTT
* * * *
1280782 TTTTTACCTAGATGTATCAATACGTTTTTCAATGTATCGATACATATATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCAATACATTTTTCAATATATCGATACATATATGAATGTATCGATACAT
* * *
1280847 TCTTCAATATATCGATACATTCTATCT
66 TCTTCAATATATCAATACATTATGT-T
*
1280874 TTTTT-CCCAAATGTATCGATACATT
1 TTTTTACCCAAATGTATCAATACATT
1280899 GAATAATGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
91 94 0.94
92 6 0.06
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (91 bp):
TTTTTACCCAAATGTATCAATACATTTTTCAATATATCGATACATATATGAATGTATCGATACAT
TCTTCAATATATCAATACATTATGTT
Found at i:1284667 original size:13 final size:13
Alignment explanation
Indices: 1284649--1284676 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1284639 TACATAAAAA
1284649 ATTGTATCGATAC
1 ATTGTATCGATAC
1284662 ATTGTATCGATAC
1 ATTGTATCGATAC
1284675 AT
1 AT
1284677 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:1284691 original size:32 final size:33
Alignment explanation
Indices: 1284630--1284694 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1284620 TTTCAATGAT
1284630 TTGTATCGATACATAAAAAATTGTATCGATACA
1 TTGTATCGATACATAAAAAATTGTATCGATACA
**
1284663 TTGTATCGATACAT-AAATTTTGTATCGATACA
1 TTGTATCGATACATAAAAAATTGTATCGATACA
1284695 ATTTAAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATAAAAAATTGTATCGATACA
Found at i:1284738 original size:21 final size:21
Alignment explanation
Indices: 1284713--1284792 Score: 151
Period size: 21 Copynumber: 3.8 Consensus size: 21
1284703 TACTGCCAAA
1284713 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
*
1284734 AAATGTATCGATACACTACTC
1 AAATGTATCGATACATTACTC
1284755 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
1284776 AAATGTATCGATACATT
1 AAATGTATCGATACATT
1284793 GTATCGATAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:1284797 original size:13 final size:13
Alignment explanation
Indices: 1284779--1284803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1284769 ATTACTCAAA
1284779 TGTATCGATACAT
1 TGTATCGATACAT
1284792 TGTATCGATACA
1 TGTATCGATACA
1284804 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1298762 original size:13 final size:13
Alignment explanation
Indices: 1298744--1298801 Score: 64
Period size: 13 Copynumber: 4.2 Consensus size: 13
1298734 GCATCCTCCG
1298744 CAAAAAAAAAAAA
1 CAAAAAAAAAAAA
1298757 CAAAAACAAAACAAA
1 CAAAAA-AAAA-AAA
1298772 -ATAACAAAAAAAAA
1 CA-AA-AAAAAAAAA
*
1298786 CAAAAAAACAAAA
1 CAAAAAAAAAAAA
1298799 CAA
1 CAA
1298802 CAACAAAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 17 0.44
14 10 0.26
15 10 0.26
16 2 0.05
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:1298767 original size:18 final size:18
Alignment explanation
Indices: 1298745--1298810 Score: 89
Period size: 19 Copynumber: 3.6 Consensus size: 18
1298735 CATCCTCCGC
1298745 AAAAA-AAAAAAACAAAA
1 AAAAACAAAAAAACAAAA
*
1298762 ACAAAACAAAATAACAAAA
1 A-AAAACAAAAAAACAAAA
1298781 AAAAACAAAAAAACAAAA
1 AAAAACAAAAAAACAAAA
*
1298799 CAACAACAAAAA
1 -AAAAACAAAAA
1298811 GGGTTCGGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
17 1 0.02
18 20 0.47
19 22 0.51
ACGTcount: A:0.85, C:0.14, G:0.00, T:0.02
Consensus pattern (18 bp):
AAAAACAAAAAAACAAAA
Found at i:1298793 original size:26 final size:28
Alignment explanation
Indices: 1298748--1298810 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
1298738 CCTCCGCAAA
*
1298748 AAAAAAAAACAAAAACAAAACAAAATAAC
1 AAAAAAAAAC-AAAACAAAACAAAACAAC
1298777 AAAAAAAAAC-AAA-AAAACAAAACAAC
1 AAAAAAAAACAAAACAAAACAAAACAAC
*
1298803 AACAAAAA
1 AAAAAAAA
1298811 GGGTTCGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 19 0.59
27 3 0.09
29 10 0.31
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (28 bp):
AAAAAAAAACAAAACAAAACAAAACAAC
Found at i:1298806 original size:29 final size:31
Alignment explanation
Indices: 1298744--1298810 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 31
1298734 GCATCCTCCG
*
1298744 CAAAAAAAAAAAACAAAAACAAAACAAAATAA
1 CAAAAAAAAAAAACAAAAACAAAAC-AAACAA
*
1298776 CAAAAAAAAACAA-AAAAACAAAAC-AACAA
1 CAAAAAAAAAAAACAAAAACAAAACAAACAA
1298805 CAAAAA
1 CAAAAA
1298811 GGGTTCGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 10 0.30
31 11 0.33
32 12 0.36
ACGTcount: A:0.84, C:0.15, G:0.00, T:0.01
Consensus pattern (31 bp):
CAAAAAAAAAAAACAAAAACAAAACAAACAA
Found at i:1300293 original size:33 final size:33
Alignment explanation
Indices: 1300251--1300468 Score: 327
Period size: 33 Copynumber: 6.7 Consensus size: 33
1300241 CATCTTTTTC
*
1300251 AAAGCCCACACAAGTCGGTGGCAAACTTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAAACCTTCTCT
* *
1300284 AAAGCCCACATAAGTCGGTGGCAAACCTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAAACCTTCTCT
*
1300317 AAAGCCCACACAAGTCGGTGGCAAACCGTCTCT
1 AAAGCCCACACAAGTCGGTGGCAAACCTTCTCT
1300350 AAAGCCCACACAAGTCGGTGGCAAACCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAAACCTTCTCT
*
1300383 AAAGCCCACACAAGT-GGTGGC-AACC-CCTCT
1 AAAGCCCACACAAGTCGGTGGCAAACCTTCTCT
* *
1300413 AAAGGCCACACAAGTCGGTGGC-AACCTTCTTCA
1 AAAGCCCACACAAGTCGGTGGCAAACCTTC-TCT
*
1300446 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTCGGTGGCA
1300469 TCTACCTTTA
Statistics
Matches: 168, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
30 18 0.11
31 14 0.08
32 7 0.04
33 129 0.77
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAAACCTTCTCT
Found at i:1300527 original size:49 final size:49
Alignment explanation
Indices: 1300474--1300806 Score: 348
Period size: 43 Copynumber: 6.9 Consensus size: 49
1300464 TGGCATCTAC
*
1300474 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
1300523 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* **
1300566 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
1300615 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1300658 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CAT
* * * *
1300710 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCAT
* * * * *
1300765 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1300807 TCTTTATCAC
Statistics
Matches: 239, Mismatches: 26, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
43 79 0.33
45 1 0.00
49 78 0.33
50 1 0.00
52 38 0.16
53 2 0.01
55 39 0.16
56 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
Found at i:1300629 original size:92 final size:92
Alignment explanation
Indices: 1300472--1300757 Score: 491
Period size: 92 Copynumber: 3.1 Consensus size: 92
1300462 GGTGGCATCT
**
1300472 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATG
1300537 TAGCTGGCCTTGAATCAGCACATTGGC
66 TAGCTGGCCTTGAATCAGCACATTGGC
1300564 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATG
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATG
1300629 TAGCTGGCCTTGAATCAGCACATTGGC
66 TAGCTGGCCTTGAATCAGCACATTGGC
* *
1300656 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCA
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT---TCTTTAAGTCCA
*
1300721 ATGTAGCTGGCCTTGAATCAGCACATTGAC
63 ATGTAGCTGGCCTTGAATCAGCACATTGGC
1300751 ATCCTTT
1 A-CCTTT
1300758 TTCTCATCTT
Statistics
Matches: 185, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
92 139 0.75
95 41 0.22
96 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (92 bp):
ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGC
Found at i:1300736 original size:52 final size:53
Alignment explanation
Indices: 1300658--1300811 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 53
1300648 ACATTGGCAC
1300658 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
1300710 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
1300765 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1300812 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:1301664 original size:13 final size:13
Alignment explanation
Indices: 1301646--1301682 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1301636 TAAAATATTA
1301646 TATCGATACATTG
1 TATCGATACATTG
1301659 TATCGATACATTG
1 TATCGATACATTG
*
1301672 TATCAATACAT
1 TATCGATACAT
1301683 AAATTTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:1301805 original size:52 final size:52
Alignment explanation
Indices: 1301763--1301891 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1301753 CACTGATCTT
1301763 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
1301815 TGTATCGATACATGCAAGCAAATTTGCCCAGATGCATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
1301867 TGTATCGATACAAGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1301892 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:1310564 original size:20 final size:20
Alignment explanation
Indices: 1310539--1310665 Score: 85
Period size: 20 Copynumber: 5.8 Consensus size: 20
1310529 CTACCAAGGA
1310539 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
1310559 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
1310579 TTTGTATCGATACATCTAGGAAGTTTACC
1 AATGTATCGATACAT-T--G-A---T--C
*
1310608 TAAATGTATCGATACATTGCTC
1 --AATGTATCGATACATTGATC
* * *
1310630 ATTGTATCAATACATTGCTC
1 AATGTATCGATACATTGATC
1310650 AATGTATCGATACATT
1 AATGTATCGATACATT
1310666 CAGGCATTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
20 63 0.73
21 2 0.02
22 1 0.01
23 1 0.01
24 2 0.02
27 1 0.01
28 1 0.01
29 1 0.01
30 1 0.01
31 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:1313041 original size:51 final size:50
Alignment explanation
Indices: 1312964--1313129 Score: 190
Period size: 51 Copynumber: 3.3 Consensus size: 50
1312954 TTTCATCTTA
* * * *
1312964 GGGATACTCTAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCG
1 GGGATACTCCAACT-CCGATTTTATTTCCAAAACA-CAATTTTTCATAATCG
* * *
1313015 GGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACA-CAATTTTTCATAATCG
* * * *
1313066 GGGATACTCCAACTCTGATTTTATTTTCAAAACACAGACTTTTCACAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACA-ATTTTTCATAATCG
1313117 GGGATACTCCAAC
1 GGGATACTCCAAC
1313130 CCTGTTATTT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.01
51 96 0.98
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACAATTTTTCATAATCG
Found at i:1313156 original size:79 final size:78
Alignment explanation
Indices: 1313065--1313565 Score: 613
Period size: 79 Copynumber: 6.4 Consensus size: 78
1313055 TTCCATAATC
* * *
1313065 GGGGATACTCCAACTCTGATTTTATTT-TCAAAACA-CAGACTTTTCACAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACATCA-A-TTTTCACAATCGGGGATACTCCA
*
1313128 ACCCTGTTATTTTCGA
63 ACCCCGTTATTTTCGA
* * *
1313144 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTT-TC-ATCGGGGATACTCCTACC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCACAATCGGGGATACTCCAACC
1313207 CCGTTATTTTCGA
66 CCGTTATTTTCGA
* *
1313220 GGGGATA-TCCCAACCCCCGTTTTATTTCTAAAACATCAATTTT-TC-ATCGGGGATACTCCAAC
1 GGGGATACT-CCAACCCCGGTTTTATTTCTAAAACATCAATTTTCACAATCGGGGATACTCCAAC
1313282 CCCGTTATTTTCGA
65 CCCGTTATTTTCGA
* *** * * * *
1313296 GGGGATACCCCAACAATGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTT-TCACAATCGGGGATACTCCAAC
*
1313361 CCCGTTATTTCCGA
65 CCCGTTATTTTCGA
* * *
1313375 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTCGGGGATACCCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAA-TTTTCACAATCGGGGATACTCCAAC
*
1313440 CCCCTTATTTTCGA
65 CCCGTTATTTTCGA
* * * * *
1313454 GGGGATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGAATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATC-AATTTTCACAATCGGGGATACTCCAAC
*
1313519 CCCGTTATTTTTGA
65 CCCGTTATTTTCGA
*
1313533 GGGGATACTCCAACCCC-GTTATTATCTCTAAAA
1 GGGGATACTCCAACCCCGGTT-TTATTTCTAAAA
1313566 TATTAAATTT
Statistics
Matches: 366, Mismatches: 46, Indels: 20
0.85 0.11 0.05
Matches are distributed among these distances:
75 1 0.00
76 133 0.36
77 2 0.01
78 6 0.02
79 217 0.59
80 7 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCACAATCGGGGATACTCCAACC
CCGTTATTTTCGA
Found at i:1319780 original size:61 final size:61
Alignment explanation
Indices: 1319685--1320067 Score: 396
Period size: 61 Copynumber: 6.3 Consensus size: 61
1319675 CCTTTTTAGC
* * *
1319685 CCTTTAGTCCTCAAAGAGCATG-ACG-TCTTTTTCTTTTCAAAGCTCACACGAGTTAGTGGCA
1 CCTTTAGTCCTCAAAGAGCA-GAACGCT-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
**
1319746 CCTTTAGTCCTCAAAGAGCAGAACGCTTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGAACGCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* ** * * *
1319807 CCTTTAGTCCTCAAAGAGCAGGACATTTTTTTTCTTTTTTTAAAGCCTACACAAGTTAGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGAAC-GCTTTTTTC--TTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1319871 CCTTTAGTCCTCAAAGAGCA-AGATGCCTTTTCCTTTT-AAAGTCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGA-ACGCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
1319931 CCTTTTAGTCCTCAAAGAGCAGGACAC-CTTTTTTC-TTTCGAAGCCCACACAAGTTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCA-GA-ACGCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1319993 CATTTTCAGTCCTCAAAGAGCAGGACGC------CTTTT-AAAGCCCACACAAGTTGGTGGCA
1 C-CTTT-AGTCCTCAAAGAGCAGAACGCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
1320049 CTTTTTAGTCCTCAAAGAG
1 C-CTTTAGTCCTCAAAGAG
1320068 TAGGACACCT
Statistics
Matches: 278, Mismatches: 30, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
55 13 0.05
56 28 0.10
57 3 0.01
60 23 0.08
61 104 0.37
62 41 0.15
63 22 0.08
64 44 0.16
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (61 bp):
CCTTTAGTCCTCAAAGAGCAGAACGCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1319879 original size:125 final size:120
Alignment explanation
Indices: 1319685--1320075 Score: 447
Period size: 125 Copynumber: 3.2 Consensus size: 120
1319675 CCTTTTTAGC
* * * *
1319685 CCTTTAGTCCTCAAAGAGCATGAC-GTCTTTTTCTTTTCAAAG-CTCACACGAGTTAGTGGCACC
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTCAAAGCCT-ACACAAGTTAGTGGCACC
**
1319748 TTTAGTCCTCAAAGAGCAGAACGCTTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAGAACGC--TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
1319807 CCTTTAGTCCTCAAAGAGCAGGACATTTTTTTTCTTTTTTTAAAGCCTACACAAGTTAGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTTTC--TTTTCAAAGCCTACACAAGTTAGTGGCAC
* *
1319872 CTTTAGTCCTCAAAGAGCA-AGATGCCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCA
64 CTTTAGTCCTCAAAGAGCAGA-ACG-CTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1319931 CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTTC-TTTCGAAGCCCACACAAGTTGGTGGCACA
1 CC-TTTAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTCAAAGCCTACACAAGTTAGTGGCAC-
* *
1319995 TTTTCAGTCCTCAAAGAGCAGGACGC----CTTTTAAAGCCCACACAAGTTGGTGGCA
64 CTTT-AGTCCTCAAAGAGCAGAACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1320049 CTTTTTAGTCCTCAAAGAGTAGGACAC
1 C-CTTTAGTCCTCAAAGAGCAGGACAC
1320076 CTGTTAGGAT
Statistics
Matches: 236, Mismatches: 21, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
118 51 0.22
122 47 0.20
123 11 0.05
124 44 0.19
125 80 0.34
126 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (120 bp):
CCTTTAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTCAAAGCCTACACAAGTTAGTGGCACCT
TTAGTCCTCAAAGAGCAGAACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1320477 original size:13 final size:13
Alignment explanation
Indices: 1320459--1320484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1320449 TACAGCAAGT
1320459 ATGTATCGATACA
1 ATGTATCGATACA
1320472 ATGTATCGATACA
1 ATGTATCGATACA
1320485 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1322736 original size:21 final size:21
Alignment explanation
Indices: 1322703--1322747 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1322693 TTGCAAGTTG
*
1322703 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1322725 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1322745 AAA
1 AAA
1322748 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1324571 original size:15 final size:15
Alignment explanation
Indices: 1324551--1324581 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1324541 TAAAATTGTC
*
1324551 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1324566 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1324581 C
1 C
1324582 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1326585 original size:13 final size:13
Alignment explanation
Indices: 1326567--1326592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1326557 ACATTTTTCT
1326567 TTGTATCGATACA
1 TTGTATCGATACA
1326580 TTGTATCGATACA
1 TTGTATCGATACA
1326593 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1329157 original size:13 final size:13
Alignment explanation
Indices: 1329139--1329164 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1329129 TACAGCAAGT
1329139 ATGTATCGATACA
1 ATGTATCGATACA
1329152 ATGTATCGATACA
1 ATGTATCGATACA
1329165 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1330036 original size:61 final size:62
Alignment explanation
Indices: 1329934--1330160 Score: 309
Period size: 62 Copynumber: 3.7 Consensus size: 62
1329924 TTTTCCTTCG
* * *
1329934 AAGCCCACACGAGTGGGTGGCACCCTCCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTA
1 AAGCCCACACAAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTA
* * *
1329996 AAGCCCACACAAGTTGGTGGCACCAT-TAGTCCTCAAAGAGCAGGATG-CTTTTTCCTTTCA
1 AAGCCCACACAAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTA
* ** *
1330056 AAGCCCACACGAGTTGGCAGCACCCT-TCAGTCCTCAAAGAGCAGGACGCCTTTTT-TCTTTTA
1 AAGCCCACACAAGTTGGTGGCACCCTCT-AGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTTTA
*
1330118 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCA
1 AAGCCCACACAAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCA
1330161 AGACGCTCTC
Statistics
Matches: 144, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
60 34 0.24
61 39 0.27
62 70 0.49
63 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (62 bp):
AAGCCCACACAAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTA
Found at i:1330138 original size:122 final size:123
Alignment explanation
Indices: 1329923--1330178 Score: 383
Period size: 122 Copynumber: 2.1 Consensus size: 123
1329913 TTCAACACCT
* ** *
1329923 TTTTTCC-TTCGAAGCCCACACGAGTGGGTGGCACCCTCCAGTCCTCAAAGAGCAGGATGCCTTT
1 TTTTTCCTTTCAAAGCCCACACGAGTGGGCAGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTTT
* *
1329987 TTCTTTTTAAAGCCCACACAAGTTGGTGGCACCAT-TAGTCCTCAAAGAGCAGGATGC
66 TTCTTTTTAAAGCCCACACAAGTTGGTGGCACCATCTAGTCCTCAAAGAGCAAGACGC
* *
1330044 TTTTTCCTTTCAAAGCCCACACGAGTTGGCAGCACCCTTCAGTCCTCAAAGAGCAGGACGCCTTT
1 TTTTTCCTTTCAAAGCCCACACGAGTGGGCAGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTTT
*
1330109 TT-TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGC
66 TTCT-TTTTAAAGCCCACACAAGTTGGTGGCACCATCTAGTCCTCAAAGAGCAAGACGC
* *
1330167 TCTCTCCTTTCA
1 TTTTTCCTTTCA
1330179 CCATTTAGTC
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 8 0.07
122 83 0.69
123 30 0.25
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (123 bp):
TTTTTCCTTTCAAAGCCCACACGAGTGGGCAGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTTT
TTCTTTTTAAAGCCCACACAAGTTGGTGGCACCATCTAGTCCTCAAAGAGCAAGACGC
Found at i:1330271 original size:55 final size:55
Alignment explanation
Indices: 1330185--1330376 Score: 224
Period size: 55 Copynumber: 3.4 Consensus size: 55
1330175 TTCACCATTT
* * ** *
1330185 AGTCCTCAAAGAACAGGACACCTTTCGAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
1330240 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
1330295 AATCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
*
1330355 TAGTCCTCAAAGAGCAAGACGC
1 -AGTCCTCAAAGAGCAGGACGC
1330377 TCTCTCTTTT
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
55 68 0.58
60 4 0.03
61 45 0.38
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:1330372 original size:210 final size:208
Alignment explanation
Indices: 1329995--1330585 Score: 756
Period size: 210 Copynumber: 2.8 Consensus size: 208
1329985 TTTTCTTTTT
*
1329995 AAAGCCCACACAAGTTGGTGGCACCATT-AGTCCTCAAAGAGCAGGATGCTTTTTCCTTTCAAAG
1 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGAT-C----TCCTTTTAAAG
** *
1330059 CCCACACGAGTTGGCAGCACCCTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTAAAGCCC
60 CCCACACGAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGACGCC--TTTCCTTTTAAAGCCC
1330124 ACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCTCTCTCCTTTCACCATTTAGTC
123 ACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAAGACGCTCTCTCCTTTCACCATTTAGTC
1330189 CTCAAAGAACAGGACACCTTTC
187 CTCAAAGAACAGGACACCTTTC
* *
1330211 GAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA-CGCCTTTTAAAGCCCAC
1 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATCTCCTTTTAAAGCCCAC
* * *
1330275 ACGAGTTGGTGGCACCCTCCAATCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCATACAA
65 ACGAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAA
* * * *
1330340 GTTGGTGGCACTTCCTAGTCCTCAAAGAGCAAGACGCTCTCTCTTTTCGCCTTTTTGTCCTCAAA
129 GTTGGTGGCACTT-CTAGTCCTCAAAGAGCAAGACGCTCTCTCCTTTCACCATTTAGTCCTCAAA
* * ** *
1330405 GAGCAGTATGCCTTTT
193 GAACAGGACACCTTTC
*
1330421 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG--A---TCTCCTTTTAAAGC
* ** * *
1330486 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-CTTTCTTTTTGCAAAGCCCA
61 CCACACGAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTT--AAAGCCCA
*
1330550 CACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
124 CACAAGTTGGTGGCACTTCT-AGTCCTCAAAGAGCA
1330586 GGATGCTTTC
Statistics
Matches: 332, Mismatches: 31, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
209 25 0.08
210 109 0.33
211 53 0.16
213 6 0.02
214 4 0.01
215 91 0.27
216 26 0.08
217 18 0.05
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (208 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATCTCCTTTTAAAGCCCACA
CGAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGT
TGGTGGCACTTCTAGTCCTCAAAGAGCAAGACGCTCTCTCCTTTCACCATTTAGTCCTCAAAGAA
CAGGACACCTTTC
Found at i:1330515 original size:154 final size:155
Alignment explanation
Indices: 1330241--1330524 Score: 455
Period size: 154 Copynumber: 1.8 Consensus size: 155
1330231 GCACCTTTCA
* *
1330241 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAATCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAATCCTCAAAG
* *
1330306 AGCAGGACGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
66 AGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
1330371 AGACGCTCTCTCTTTTCGCCTTTTT
131 AGACGCTCTCTCTTTTCGCCTTTTT
* * * *
1330396 GTCCTCAAAGAGCAGTATGCCTTTTAAAGCCCACACAAGCTGGTGGCA-CCTTCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAATCCTCAAAG
* *
1330460 AGCAGGACACTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TTCAGTCCTCAAAGAGC
66 AGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAGC
1330524 A
130 A
1330525 GGATGCTTTC
Statistics
Matches: 118, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
153 1 0.01
154 73 0.62
155 44 0.37
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (155 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAATCCTCAAAG
AGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCA
AGACGCTCTCTCTTTTCGCCTTTTT
Found at i:1330546 original size:61 final size:60
Alignment explanation
Indices: 1330396--1331012 Score: 728
Period size: 61 Copynumber: 10.3 Consensus size: 60
1330386 TCGCCTTTTT
* * *
1330396 GTCCTCAAAGAGCAGTATGC---C-TTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTCA
1 GTCCTCAAAGAGCAGGATGCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
**
1330450 GTCCTCAAAGAGCAGGACACTTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGATGCTTTCT--TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1330511 GTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGATGCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCA
* *
1330572 GTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCA
1 GTCCTCAAAGAGCAGGATGCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * *
1330633 GTCCTCAACGGGCAGGACGCCTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCA
1 GTCCTCAAAGAGCAGGATG-CTTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * *
1330694 GTCCTTAAAGAGCAAGACGC---C--TTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCTA
1 GTCCTCAAAGAGCAGGATGCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-A
** *
1330749 GTCCTCAAAGAGCAGGACACCTTTTCTTTTT-AAAGTCCACACAAGTTGGTGGCA-TTTTCCA
1 GTCCTCAAAGAGCAGGA-TGC-TTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CA
* * *
1330810 GTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGCTGGCAC-CTTCTA
1 GTCCTCAAAGAGCAGGATGCTTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-A
* * *
1330871 GTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCA
1 GTCCTCAAAGAGCAGGATGCTTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * *
1330932 GTCCTCAAAGAGCAAGATGCCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTA
1 GTCCTCAAAGAGCAGGATG-CTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
*
1330993 GTCCTCAAAGAGCAAGATGC
1 GTCCTCAAAGAGCAGGATGC
1331013 ACTTTATTTT
Statistics
Matches: 495, Mismatches: 41, Indels: 48
0.85 0.07 0.08
Matches are distributed among these distances:
54 21 0.04
55 42 0.08
56 1 0.00
57 1 0.00
59 9 0.02
60 35 0.07
61 367 0.74
62 19 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (60 bp):
GTCCTCAAAGAGCAGGATGCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:1330987 original size:299 final size:298
Alignment explanation
Indices: 1330396--1331009 Score: 966
Period size: 299 Copynumber: 2.1 Consensus size: 298
1330386 TCGCCTTTTT
* *
1330396 GTCCTCAAAGAGC-AGTATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAG
1 GTCCTCAAAGAGCAAG-ACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAG
1330460 AGCAGGACACTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
65 AGCAGGACACTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
* * *
1330525 GGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAT
130 GGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGCTGGCACTTCTCAGTCCTCAAAGAGCAGGAT
* * * *
1330590 GCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAACGGGCAGGACGCCT
195 GCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACGCCT
*
1330655 TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCA
260 TTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCA
* * * **
1330694 GTCCTTAAAGAGCAAGACGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCTAGTCCTCAAAG
1 GTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAG
* *
1330759 AGCAGGACACCTTT-TCTTTTTAAAGTCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAG
65 AGCAGGACA-CTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAG
1330822 CAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGCTGGCACCTTCT-AGTCCTCAAAGAGCAG
128 CAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGCTGGCA-CTTCTCAGTCCTCAAAGAGCAG
*
1330886 GATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGATG
192 GATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACG
* **
1330951 CCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTA
257 CCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCA
1330993 GTCCTCAAAGAGCAAGA
1 GTCCTCAAAGAGCAAGA
1331010 TGCACTTTAT
Statistics
Matches: 289, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
298 47 0.16
299 234 0.81
300 8 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (298 bp):
GTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGA
GCAGGACACTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAG
GATGCTTTCTCTTTGCAAAGCCCACACAAGTTGCTGGCACTTCTCAGTCCTCAAAGAGCAGGATG
CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACGCCTT
TCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCA
Done.