Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005555.1 Hibiscus syriacus cultivar Beakdansim tig00012878_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 188475
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:10706 original size:17 final size:18
Alignment explanation
Indices: 10684--10717 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10674 AATAATCAAA
10684 ATAAATATAAAT-TTAAT
1 ATAAATATAAATATTAAT
10701 ATAAATATAAATATTAA
1 ATAAATATAAATATTAA
10718 ATCCAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAATATAAATATTAAT
Found at i:16622 original size:2 final size:2
Alignment explanation
Indices: 16611--16648 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
16601 CGTATTAGTT
16611 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16649 TAATTACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19080 original size:2 final size:2
Alignment explanation
Indices: 19075--19101 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19065 ATTATATAAC
19075 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19102 TGTTTTGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20817 original size:36 final size:37
Alignment explanation
Indices: 20694--20921 Score: 207
Period size: 37 Copynumber: 6.1 Consensus size: 37
20684 ATATATACAC
* * **
20694 ATATATATTATATAGTTTGTAAATTATTTTTGAAAAT
1 ATATATAATATATAGTTTTTAAAACATTTTTGAAAAT
*
20731 ACATATATAATATATAG--TTTAAAACATTTTTTGAAGAT
1 --ATATATAATATATAGTTTTTAAAACA-TTTTTGAAAAT
* * *
20769 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAAT
1 ATATATAATATATAGTTTTTAAAACATTTTTGAAAAT
*
20806 -TATATAATATATAGTTTTTGAAAACGTTTTT-AAAAT
1 ATATATAATATATAGTTTTT-AAAACATTTTTGAAAAT
* * * *
20842 ATATATAATATATACTTTTGAAAAC-GTTATGAAAACAT
1 ATATATAATATATAGTTTTTAAAACATTTTTG-AAA-AT
* *
20880 TTATATAATATATAATTTTTAAAAACCA-TTTTGAAAAT
1 ATATATAATATATAGTTTTT-AAAA-CATTTTTGAAAAT
20918 ATAT
1 ATAT
20922 TTTTTGAAAA
Statistics
Matches: 156, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
35 3 0.02
36 40 0.26
37 45 0.29
38 42 0.27
39 21 0.13
40 5 0.03
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
ATATATAATATATAGTTTTTAAAACATTTTTGAAAAT
Found at i:20830 original size:75 final size:73
Alignment explanation
Indices: 20694--20921 Score: 214
Period size: 75 Copynumber: 3.1 Consensus size: 73
20684 ATATATACAC
* *
20694 ATATATATTATATAGTTTGTAAATTATTTTTGAAAATACATATATAATATATAG--TTTAAAACA
1 ATATATATTATATAGTTTTTAAAATATTTTTGAAAAT---TATATAATATATAGTTTTTAAAACA
*
20757 TTTTTTGAAGAT
63 TTTTTT-AAAAT
* *
20769 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAATTATATAATATATAGTTTTTGAAAAC-GT
1 ATATATATTATATAGTTTTTAAAATATTTTTGAAAATTATATAATATATAGTTTTT-AAAACATT
20833 TTTTAAAAT
65 TTTTAAAAT
* * * ** * *
20842 ATATATAATATATACTTTTGAAAA-CGTTATGAAAACATTTATATAATATATAATTTTTAAAAAC
1 ATATATATTATATAGTTTTTAAAATATTTTTG-AAA-A-TTATATAATATATAGTTTTT-AAAA-
*
20906 CA-TTTTGAAAAT
61 CATTTTTTAAAAT
20918 ATAT
1 ATAT
20922 TTTTTGAAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
72 18 0.14
73 27 0.21
74 9 0.07
75 62 0.48
76 14 0.11
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (73 bp):
ATATATATTATATAGTTTTTAAAATATTTTTGAAAATTATATAATATATAGTTTTTAAAACATTT
TTTAAAAT
Found at i:20928 original size:15 final size:16
Alignment explanation
Indices: 20908--20937 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20898 TTAAAAACCA
20908 TTTTGAAAA-TATATT
1 TTTTGAAAATTATATT
20923 TTTTGAAAATTATAT
1 TTTTGAAAATTATAT
20938 AATATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTGAAAATTATATT
Found at i:20929 original size:127 final size:127
Alignment explanation
Indices: 20795--21048 Score: 490
Period size: 127 Copynumber: 2.0 Consensus size: 127
20785 TTTTAAAATA
* *
20795 TTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTTAAAATATATATAATATATACTTT
1 TTTTTGAAAATTATATAATATATAATTTTTGAAAACGTTTTTAAAATATATATAATATATACCTT
20860 TGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
66 TGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
20922 TTTTTGAAAATTATATAATATATAATTTTTGAAAACGTTTTTAAAATATATATAATATATACCTT
1 TTTTTGAAAATTATATAATATATAATTTTTGAAAACGTTTTTAAAATATATATAATATATACCTT
20987 TGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
66 TGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
21049 ATAATATATA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (127 bp):
TTTTTGAAAATTATATAATATATAATTTTTGAAAACGTTTTTAAAATATATATAATATATACCTT
TGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
Found at i:20944 original size:25 final size:25
Alignment explanation
Indices: 20880--20956 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
20870 ATGAAAACAT
*
20880 TTATATAATATATAATTTTTAAAAA
1 TTATATAATATATAATTTTTGAAAA
** * * *
20905 CCATTTTGAAAATATATTTTTTGAAAA
1 TTA-TAT-AATATATAATTTTTGAAAA
20932 TTATATAATATATAATTTTTGAAAA
1 TTATATAATATATAATTTTTGAAAA
20957 CGTTTTTAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
25 18 0.46
26 4 0.10
27 17 0.44
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (25 bp):
TTATATAATATATAATTTTTGAAAA
Found at i:20989 original size:36 final size:37
Alignment explanation
Indices: 20922--21113 Score: 174
Period size: 40 Copynumber: 5.1 Consensus size: 37
20912 GAAAATATAT
20922 TTTTTGAAAAT-TATATAATATATAATTTTTGAAAACG
1 TTTTT-AAAATATATATAATATATAATTTTTGAAAACG
**
20959 TTTTTAAAATATATATAATATAT-ACCTTTGAAAACG
1 TTTTTAAAATATATATAATATATAATTTTTGAAAACG
** * * *
20995 TTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
1 TT-TTTAAA-ATATATATAATATATAATTTTTGAAAA-CG
* * *
21035 TTTTGAAAATATATATAATATATATATTTTTTTAAGAACA
1 TTTTTAAAATATATATAATATATA-A-TTTTTGAA-AACG
* * * *
21075 TTTTAAAAATTTATATATTATAT-GTTTTTGAAAACG
1 TTTTTAAAATATATATAATATATAATTTTTGAAAACG
21111 TTT
1 TTT
21114 ATATATAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
36 24 0.19
37 28 0.22
38 29 0.23
39 13 0.10
40 32 0.25
41 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (37 bp):
TTTTTAAAATATATATAATATATAATTTTTGAAAACG
Found at i:21050 original size:38 final size:37
Alignment explanation
Indices: 20923--21097 Score: 165
Period size: 38 Copynumber: 4.6 Consensus size: 37
20913 AAAATATATT
* *
20923 TTTTGAAAAT-TATATAATATATAATTTTTGAAAACG
1 TTTTGAAAATATATATAATATATAATTTTTAAAAACA
* ** * *
20959 TTTTTAAAATATATATAATATAT-ACCTTTGAAAACG
1 TTTTGAAAATATATATAATATATAATTTTTAAAAACA
* *
20995 TTATGAAAACATTTATATAATATATAATTTTTAAAAACCA
1 TTTTG-AAA-ATATATATAATATATAATTTTTAAAAA-CA
*
21035 TTTTGAAAATATATATAATATATATATTTTTTTAAGAACA
1 TTTTGAAAATATATATAATATATA-A--TTTTTAAAAACA
* * *
21075 TTTTAAAAATTTATATATTATAT
1 TTTTGAAAATATATATAATATAT
21098 GTTTTTGAAA
Statistics
Matches: 115, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
36 23 0.20
37 15 0.13
38 29 0.25
39 12 0.10
40 27 0.23
41 9 0.08
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAATTTTTAAAAACA
Found at i:21103 original size:25 final size:27
Alignment explanation
Indices: 21075--21124 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
21065 TTTAAGAACA
*
21075 TTTT-AAAA-ATTTATATATTATATGT
1 TTTTGAAAACATTTATATATAATATGT
*
21100 TTTTGAAAACGTTTATATATAATAT
1 TTTTGAAAACATTTATATATAATAT
21125 TTATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 4 0.19
27 13 0.62
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (27 bp):
TTTTGAAAACATTTATATATAATATGT
Found at i:21143 original size:16 final size:17
Alignment explanation
Indices: 21124--21157 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
21114 ATATATAATA
21124 TTTATTATT-ATTTATT
1 TTTATTATTAATTTATT
*
21140 TTTATTTTTAATTTATT
1 TTTATTATTAATTTATT
21157 T
1 T
21158 ATTTCTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTATTAATTTATT
Found at i:22267 original size:19 final size:17
Alignment explanation
Indices: 22243--22291 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
22233 AAGTTTTATT
22243 TTATTTTGTTTTATCGTCA
1 TTATTTT-TTTTATCGT-A
*
22262 TTA-TTTTTTTCTCGTA
1 TTATTTTTTTTATCGTA
22278 TTATTTTATTTTAT
1 TTATTTT-TTTTAT
22292 TGCTTCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 8 0.31
19 3 0.12
ACGTcount: A:0.16, C:0.08, G:0.06, T:0.69
Consensus pattern (17 bp):
TTATTTTTTTTATCGTA
Found at i:22280 original size:16 final size:17
Alignment explanation
Indices: 22251--22284 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22241 TTTTATTTTG
22251 TTTTATCGTCATTATTT
1 TTTTATCGTCATTATTT
*
22268 TTTTCTCGT-ATTATTT
1 TTTTATCGTCATTATTT
22284 T
1 T
22285 ATTTTATTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.68
Consensus pattern (17 bp):
TTTTATCGTCATTATTT
Found at i:23892 original size:31 final size:31
Alignment explanation
Indices: 23838--23915 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
23828 GATATTTTTT
* * * *
23838 ATTAATAAACTT-TGAAA-TATTATACAATG
1 ATTAATAAATTTATCAAACTATTATAAAATA
* *
23867 ATTATTAAGTTTATCAAACTATTATAAAATA
1 ATTAATAAATTTATCAAACTATTATAAAATA
23898 ATTAATAAATTTATCAAA
1 ATTAATAAATTTATCAAA
23916 TTTATTATGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 9 0.23
30 4 0.10
31 26 0.67
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (31 bp):
ATTAATAAATTTATCAAACTATTATAAAATA
Found at i:25775 original size:2 final size:2
Alignment explanation
Indices: 25768--25792 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25758 GATGCAAAGA
25768 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
25793 GGTTTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28980 original size:4 final size:4
Alignment explanation
Indices: 28973--28997 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
28963 ATTTTAAAAG
28973 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
28998 AGATATGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:32252 original size:59 final size:59
Alignment explanation
Indices: 32153--32264 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
32143 TAGTCGAATG
* * *
32153 ATTATTTTATAAATTTTAATAGTCAATAAACTTAATAAAATAGCATCTTATAATCAGATA
1 ATTATTTTATAAATTTTAATAGTCAAGAAACTTAACAAAATAGCA-CATATAATCAGATA
* *
32213 ATTATTTTAT-ACTTTTAATAGTTAAGAAA-TTCAACAAAATAGCACATATAAT
1 ATTATTTTATAAATTTTAATAGTCAAGAAACTT-AACAAAATAGCACATATAAT
32265 ATTTGCATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 9 0.20
59 27 0.59
60 10 0.22
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.39
Consensus pattern (59 bp):
ATTATTTTATAAATTTTAATAGTCAAGAAACTTAACAAAATAGCACATATAATCAGATA
Found at i:55949 original size:24 final size:24
Alignment explanation
Indices: 55922--55969 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
55912 GGCTCGATTT
55922 TCTTCCAACAGTCAGACCTTTTAA
1 TCTTCCAACAGTCAGACCTTTTAA
55946 TCTTCCAACAGTCAGACCTTTTAA
1 TCTTCCAACAGTCAGACCTTTTAA
55970 ATTCCAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (24 bp):
TCTTCCAACAGTCAGACCTTTTAA
Found at i:56341 original size:24 final size:26
Alignment explanation
Indices: 56314--56372 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
56304 TCCTACATGG
*
56314 TTAATTT-A-CTTCACTGTAATTTGT
1 TTAATTTCATCTTCAATGTAATTTGT
56338 TTAATTGCTTCATCTTCAATGTAATTTGT
1 TTAA-T--TTCATCTTCAATGTAATTTGT
56367 TTAATT
1 TTAATT
56373 GTTTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 4 0.14
25 1 0.03
26 1 0.03
27 2 0.07
28 2 0.07
29 19 0.66
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (26 bp):
TTAATTTCATCTTCAATGTAATTTGT
Found at i:56530 original size:20 final size:20
Alignment explanation
Indices: 56470--56532 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
56460 ACTTGTTATT
56470 TTGTTAAGGTAATCTGTTTAA
1 TTGTT-AGGTAATCTGTTTAA
** *
56491 TTGTTTATCTATAATATGTTTAA
1 TTG-TTA--GGTAATCTGTTTAA
56514 TTGTTAGGTAATCTGTTTA
1 TTGTTAGGTAATCTGTTTA
56533 GAATTTAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 10 0.30
21 4 0.12
22 5 0.15
23 14 0.42
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (20 bp):
TTGTTAGGTAATCTGTTTAA
Found at i:56739 original size:14 final size:14
Alignment explanation
Indices: 56722--56785 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
56712 TTTCTGTTTT
*
56722 TAATCTGTTAGTTA
1 TAATATGTTAGTTA
56736 TAATATGTTAGTT-
1 TAATATGTTAGTTA
* * * *
56749 TACTGTTTTA-TTGC
1 TAATATGTTAGTT-A
*
56763 TAATTTGTTAGTTA
1 TAATATGTTAGTTA
56777 TAATATGTT
1 TAATATGTT
56786 TTTTATGCTT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
12 2 0.05
13 7 0.18
14 27 0.71
15 2 0.05
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (14 bp):
TAATATGTTAGTTA
Found at i:58614 original size:19 final size:19
Alignment explanation
Indices: 58578--58628 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
58568 ATTAATTGAA
58578 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
58596 CA-CTGATGCACTCTCCATG
1 CATC-GATGCACTCTCCATG
58615 CATCGATGCACTCT
1 CATCGATGCACTCT
58629 GAATATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 18 0.62
20 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:58645 original size:65 final size:64
Alignment explanation
Indices: 58576--58736 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 64
58566 GAATTAATTG
* *** *
58576 AACATCGAATGCATTCCATGCA-CTGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATC-GATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTCA
58640 A
64 A
* ** **
58641 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTTA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTCAA
58705 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
58737 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 41 0.49
65 42 0.50
66 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:58751 original size:64 final size:64
Alignment explanation
Indices: 58528--58756 Score: 214
Period size: 64 Copynumber: 3.5 Consensus size: 64
58518 ATTCAAAGGT
* * * *
58528 ATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCAT
1 ATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCAT
*
58590 TCC
62 TTC
* *
58593 ATGCA-CTGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 ATGCATC-GATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
*
58657 G
64 C
** ** **
58658 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTTAAACATCGAATGCATTTC
1 ATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTTC
*** *
58722 ATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 ATGCATCGATGCACACTCCATGCATCGATGCATCA
58757 AGTGTTCCAA
Statistics
Matches: 136, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
63 6 0.04
64 74 0.54
65 55 0.40
66 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTTC
Found at i:64505 original size:20 final size:21
Alignment explanation
Indices: 64476--64531 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
64466 TTTGCGCTTC
*
64476 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
64496 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
64518 ATGCATCGATGCAT
1 ATGCATCGATGCAT
64532 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:67167 original size:19 final size:19
Alignment explanation
Indices: 67143--67181 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
67133 TCGAATGCAT
67143 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
67162 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
67181 T
1 T
67182 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:67198 original size:65 final size:64
Alignment explanation
Indices: 67081--67289 Score: 219
Period size: 65 Copynumber: 3.2 Consensus size: 64
67071 ATTCAAAGGT
* ** *
67081 ATGCACCGATGCATC-AGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCAT
1 ATGCATCGATGCA-CAAG-CCATGCATCGATGCATC-A-GAATATTTTTCAAACATCGAATGCAT
*
67143 TCC
62 TTC
* *** *
67146 ATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAAACATCGAATGCATTT
1 ATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTTC-AAACATCGAATGCATTT
*
67210 G
64 C
**
67211 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATGCATTTC
1 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTTC
67275 ATGCATCGATGCACA
1 ATGCATCGATGCACA
67290 CTTGGTGCAC
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
63 6 0.05
64 53 0.43
65 63 0.52
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTTC
Found at i:67304 original size:64 final size:64
Alignment explanation
Indices: 67081--67309 Score: 223
Period size: 64 Copynumber: 3.5 Consensus size: 64
67071 ATTCAAAGGT
* * * *
67081 ATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCAT
1 ATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCAT
*
67143 TCC
62 TTC
* * * *
67146 ATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTTC
** **
67211 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATGCATTTC
1 ATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTTC
*** *
67275 ATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 ATGCATCGATGCACACTCCATGCATCGATGCATCA
67310 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
63 6 0.04
64 69 0.50
65 63 0.46
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTTC
Found at i:73884 original size:110 final size:110
Alignment explanation
Indices: 73671--74108 Score: 632
Period size: 110 Copynumber: 4.0 Consensus size: 110
73661 TCGGAATTGG
* *
73671 GCTTGTGTTGTCTCGAGTCTAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAACCTGA
1 GCTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGA
* *
73736 AAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTCGA
66 AAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGA
* * *
73781 GCTTGTGTTGTCTTGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTTAATGAAACTGA
1 GCTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGA
* * * * * *
73846 AAAGTTATTTGTTGCCATTCAGTCACCCATTCGTTGTGAAGTTGA
66 AAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGA
* *
73891 GCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGA
1 GCTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGA
*
73956 AAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAATTTGA
66 AAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGA
* * * * *
74001 GCTTGTGTTGTTTCGAGTCTAATATCCTTCTCTGTGAAGTTGAAATTGACTCTGAATGAACCTGA
1 GCTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGA
* * *
74066 AAAGTTGTTTATTG--A--CAGTCGCCCTTTCACTGTGAAGTTGA
66 AAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGA
74107 GC
1 GC
74109 AACCACCATC
Statistics
Matches: 294, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
106 25 0.09
108 1 0.00
110 268 0.91
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (110 bp):
GCTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGA
AAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGA
Found at i:77802 original size:38 final size:38
Alignment explanation
Indices: 77749--77843 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 38
77739 AATATTAGAT
* *
77749 AAAGAATAATAAATAAATA-TTAAATAAATGAAAAGAAGGA
1 AAAGAA-AA-AAATAAATACTAAAATAAA-GAAAAGAAAGA
*
77789 AAAGAAAAAAAT-AATACTAAAATAAAGAAAATAAAGA
1 AAAGAAAAAAATAAATACTAAAATAAAGAAAAGAAAGA
* *
77826 AAATAAAAACATTAAATA
1 AAAGAAAAA-AATAAATA
77844 AATCAAAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
37 21 0.45
38 14 0.30
39 6 0.13
40 6 0.13
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (38 bp):
AAAGAAAAAAATAAATACTAAAATAAAGAAAAGAAAGA
Found at i:77821 original size:9 final size:9
Alignment explanation
Indices: 77770--77832 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
77760 AATAAATATT
77770 AAATAAATGA
1 AAATAAA-GA
* *
77780 AAAGAAGGA
1 AAATAAAGA
*
77789 AAAGAAA-A
1 AAATAAAGA
*
77797 AAATAATACTA
1 AAATAA-A-GA
77808 AAATAAAGA
1 AAATAAAGA
77817 AAATAAAGA
1 AAATAAAGA
77826 AAATAAA
1 AAATAAA
77833 AACATTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 6 0.13
9 26 0.58
10 6 0.13
11 7 0.16
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.13
Consensus pattern (9 bp):
AAATAAAGA
Found at i:77832 original size:23 final size:23
Alignment explanation
Indices: 77789--77833 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77779 AAAAGAAGGA
* *
77789 AAAGAAAAAAATAATACTAAAAT
1 AAAGAAAAAAAGAATAATAAAAT
77812 AAAGAAAATAAAGAA-AATAAAA
1 AAAGAAAA-AAAGAATAATAAAA
77834 ACATTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (23 bp):
AAAGAAAAAAAGAATAATAAAAT
Found at i:77841 original size:18 final size:18
Alignment explanation
Indices: 77770--77832 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
77760 AATAAATATT
* *
77770 AAATAAATGAAAAGAAGGA
1 AAATAAA-GAAAATAAAGA
* *
77789 AAAGAAA-AAAATAATACTA
1 AAATAAAGAAAATAA-A-GA
77808 AAATAAAGAAAATAAAGA
1 AAATAAAGAAAATAAAGA
77826 AAATAAA
1 AAATAAA
77833 AACATTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
17 6 0.17
18 8 0.23
19 14 0.40
20 7 0.20
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
AAATAAAGAAAATAAAGA
Found at i:78210 original size:21 final size:21
Alignment explanation
Indices: 78181--78233 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
78171 ATTCTGACTA
78181 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
78202 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
78223 TCGCAATGCGA
1 TCGCATTGCGA
78234 ATACATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:78255 original size:20 final size:20
Alignment explanation
Indices: 78223--78336 Score: 129
Period size: 20 Copynumber: 5.7 Consensus size: 20
78213 TTTTCCTAAT
*
78223 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
78243 TCACAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
78264 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
78284 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
78304 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
78324 TCACAACGCGAAT
1 TCGCAATGCGAAT
78337 CTGACTATCG
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 63 0.83
21 13 0.17
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:78351 original size:20 final size:20
Alignment explanation
Indices: 78328--78366 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78318 CGTAAATCAC
*
78328 AACGCGAATCTGACTATCGT
1 AACGAGAATCTGACTATCGT
*
78348 AACGAGATTCTGACTATCG
1 AACGAGAATCTGACTATCG
78367 CAGTACTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (20 bp):
AACGAGAATCTGACTATCGT
Found at i:79234 original size:24 final size:24
Alignment explanation
Indices: 79207--79260 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
79197 GTATTCGAAA
79207 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
79231 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
79255 TTTGAT
1 TTTGAT
79261 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:81619 original size:20 final size:21
Alignment explanation
Indices: 81594--81667 Score: 109
Period size: 20 Copynumber: 3.7 Consensus size: 21
81584 GACATTCATT
81594 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAATA
*
81614 TGACTATCGCAACACGGAA-A
1 TGACTATCGCAACGCGGAATA
*
81634 TGACTATCACAACGCGGAAT-
1 TGACTATCGCAACGCGGAATA
81654 TGACTATCGCAACG
1 TGACTATCGCAACG
81668 AGAGAATCAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 45 0.94
21 3 0.06
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (21 bp):
TGACTATCGCAACGCGGAATA
Found at i:81698 original size:33 final size:34
Alignment explanation
Indices: 81659--81734 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
81649 GGAATTGACT
81659 ATCGCAACGAGAGAATCACAATGCG-AAATGAAA
1 ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
* *
81692 ATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
81726 ATCGCAACG
1 ATCGCAACG
81735 CGAAATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 23 0.57
34 17 0.43
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
Found at i:81915 original size:14 final size:14
Alignment explanation
Indices: 81896--81932 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
81886 CATCAATTAA
81896 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
81910 ACAAATCATCTTTT
1 ACAAATCAACATTT
81924 ACAAATCAA
1 ACAAATCAA
81933 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:83375 original size:42 final size:42
Alignment explanation
Indices: 83329--83421 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
83319 CCTTTTCAAC
* * *
83329 GATGACAGTGACCTCTTGAACGGT-GGGAGAGGACTCTTGAGG
1 GATGACAGGGACCTCTTGAACGATAGGG-GAGGACTCTTGAAG
* * * *
83371 GATGATAGGGGCCTCTTGAACGATAGGGGAGGCCTCTTGAAT
1 GATGACAGGGACCTCTTGAACGATAGGGGAGGACTCTTGAAG
83413 GATGACAGG
1 GATGACAGG
83422 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.38, T:0.22
Consensus pattern (42 bp):
GATGACAGGGACCTCTTGAACGATAGGGGAGGACTCTTGAAG
Found at i:83924 original size:20 final size:20
Alignment explanation
Indices: 83901--84005 Score: 91
Period size: 20 Copynumber: 5.6 Consensus size: 20
83891 GAAACTTAAA
*
83901 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
83921 ATCGCAATGCG-AAATGAAA
1 ATCGCAATGCGAAAATGACT
83940 ATCGCAA--C-AACAA--A--
1 ATCGCAATGCGAA-AATGACT
*
83954 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
83974 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
83994 ATCGCAATGCGA
1 ATCGCAATGCGA
84006 TTTTCATTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
14 7 0.10
16 4 0.06
17 4 0.06
18 3 0.04
19 13 0.19
20 39 0.56
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:84017 original size:19 final size:20
Alignment explanation
Indices: 83971--84026 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
83961 CGCGAAAATG
* *
83971 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGATTTTC
83991 ACTATCGCAATGCGATTTTC
1 ACTATCGCAATGCGATTTTC
* *
84011 A-TTTCGCATTGCGATT
1 ACTATCGCAATGCGATT
84027 CTTTCGTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (20 bp):
ACTATCGCAATGCGATTTTC
Found at i:84056 original size:34 final size:34
Alignment explanation
Indices: 84011--84166 Score: 145
Period size: 34 Copynumber: 4.4 Consensus size: 34
84001 TGCGATTTTC
*
84011 ATTTCGCATTGCGATTCTTTCGTTGAGATAGTCA
1 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
* *
84045 AATTCGCATTGCGATAGTCATTTTCACATTGCGATAGTCA
1 ATTTCGCATTGCGAT--TC--TTT--CGTTGCGATAGTCA
* * **
84085 TTTTCGCATTGCGATT-TTGTTGTTGCGATTTTC-
1 ATTTCGCATTGCGATTCTT-TCGTTGCGATAGTCA
*
84118 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
* *
84152 TTTTCGCGTTGCGAT
1 ATTTCGCATTGCGAT
84167 AGTCATTTTC
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
33 26 0.27
34 37 0.38
35 2 0.02
36 3 0.03
38 4 0.04
40 25 0.26
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (34 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
Found at i:84062 original size:20 final size:20
Alignment explanation
Indices: 84037--84189 Score: 136
Period size: 20 Copynumber: 8.3 Consensus size: 20
84027 CTTTCGTTGA
**
84037 GATAGTCAAATTCGCATTGC
1 GATAGTCATTTTCGCATTGC
*
84057 GATAGTCATTTTCACATTGC
1 GATAGTCATTTTCGCATTGC
84077 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
84097 GAT--T--TTGTT-G--TTGC
1 GATAGTCATT-TTCGCATTGC
**
84111 GATTTTCA-TTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
*
84130 GAT--TC--TCTCG--TTGC
1 GATAGTCATTTTCGCATTGC
*
84144 GATAGTCATTTTCGCGTTGC
1 GATAGTCATTTTCGCATTGC
84164 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
84184 GATAGT
1 GATAGT
84190 AAACTATTCT
Statistics
Matches: 112, Mismatches: 7, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
14 14 0.12
16 12 0.11
17 6 0.05
18 5 0.04
19 7 0.06
20 68 0.61
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (20 bp):
GATAGTCATTTTCGCATTGC
Found at i:86124 original size:20 final size:20
Alignment explanation
Indices: 86066--86135 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
86056 GAAACTTTAA
* **
86066 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
86086 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
86106 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
86126 ATCGCAACGC
1 ATCGCAACGC
86136 AAGAATCGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:86547 original size:22 final size:22
Alignment explanation
Indices: 86514--86576 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
86504 GGTTTCGCCA
*
86514 GAGATGGAGACTGATATCGTCG
1 GAGATGGGGACTGATATCGTCG
* * **
86536 GCGATGGGGACTGATTTTTTCG
1 GAGATGGGGACTGATATCGTCG
*
86558 GAGATGGGGACGGATATCG
1 GAGATGGGGACTGATATCG
86577 CCTTAGAGAG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.13, G:0.40, T:0.25
Consensus pattern (22 bp):
GAGATGGGGACTGATATCGTCG
Found at i:86772 original size:20 final size:20
Alignment explanation
Indices: 86747--86798 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
86737 GCTATGTAAA
86747 TCACATTGCGATAGTCAGAT
1 TCACATTGCGATAGTCAGAT
86767 TCACATTGCGATAGTCAGAT
1 TCACATTGCGATAGTCAGAT
*
86787 TCGCATTGCGAT
1 TCACATTGCGAT
86799 TTACGTATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
TCACATTGCGATAGTCAGAT
Found at i:86808 original size:20 final size:20
Alignment explanation
Indices: 86785--86857 Score: 146
Period size: 20 Copynumber: 3.6 Consensus size: 20
86775 CGATAGTCAG
86785 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
86805 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
86825 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
86845 ATTCGCATTGCGA
1 ATTCGCATTGCGA
86858 ATTAGGAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:86878 original size:21 final size:21
Alignment explanation
Indices: 86854--86899 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
86844 TATTCGCATT
86854 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
86875 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
86896 GCGA
1 GCGA
86900 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:88220 original size:3 final size:3
Alignment explanation
Indices: 88187--88245 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
88177 CCTGTAAAAA
* * * *
88187 AAT AAT TAT AAT ATAT AA- AAT AAT AAC AAT AAT AAT AAA AAT AAA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
88232 AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT
88246 TTTGTAGATC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:88228 original size:21 final size:21
Alignment explanation
Indices: 88181--88244 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
88171 ATGGGGCCTG
*
88181 TAAAAA-AATAATTATAAT-A
1 TAAAAATAATAATAATAATAA
*
88200 TATAAAATAATAACAATAATAA
1 TA-AAAATAATAATAATAATAA
*
88222 TAAAAATAAAAATAAT-ATAA
1 TAAAAATAATAATAATAATAA
88242 TAA
1 TAA
88245 TTTTGTAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 2 0.05
20 11 0.29
21 22 0.58
22 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAATAATAATAATAATAA
Found at i:90260 original size:51 final size:51
Alignment explanation
Indices: 90184--90285 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
90174 TATGAATACA
90184 ATAGCAGCGAAGAAACAAGACGGGAGTAAATTGTAAAGCCTTTAAATGTAT
1 ATAGCAGCGAAGAAACAAGACGGGAGTAAATTGTAAAGCCTTTAAATGTAT
* **
90235 ATAGCAGCGAATAAACGCGACGGGAGTAAATTGTAAAGCCTTTAAATGTAT
1 ATAGCAGCGAAGAAACAAGACGGGAGTAAATTGTAAAGCCTTTAAATGTAT
90286 GTTATGTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.23
Consensus pattern (51 bp):
ATAGCAGCGAAGAAACAAGACGGGAGTAAATTGTAAAGCCTTTAAATGTAT
Found at i:92580 original size:3 final size:3
Alignment explanation
Indices: 92574--92632 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
92564 TTTTTATCCA
*
92574 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92622 TAT TAT TAT TA
1 TAT TAT TAT TA
92633 AATATATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:93128 original size:24 final size:24
Alignment explanation
Indices: 93101--93146 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
93091 GATATAGAAC
*
93101 GAGACAGAGAGACAAAAAAAAATA
1 GAGACAGACAGACAAAAAAAAATA
* * *
93125 GAGAGAGACATAGAAAAAAAAA
1 GAGACAGACAGACAAAAAAAAA
93147 ACAGAGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.22, T:0.04
Consensus pattern (24 bp):
GAGACAGACAGACAAAAAAAAATA
Found at i:93968 original size:19 final size:18
Alignment explanation
Indices: 93932--93980 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
93922 TAGATTTTTA
*
93932 ATTTTATT-TTTTCGTTT
1 ATTTTATTGTTTTCATTT
93949 ATTTTATATGTTTTCATTT
1 ATTTTAT-TGTTTTCATTT
93968 ATTTTATTGTTTT
1 ATTTTATTGTTTT
93981 TAAATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (18 bp):
ATTTTATTGTTTTCATTT
Found at i:94048 original size:13 final size:13
Alignment explanation
Indices: 94020--94054 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
94010 TTTTATTATA
94020 TTATTAAATA-TT
1 TTATTAAATATTT
94032 TTATTAAATATTT
1 TTATTAAATATTT
94045 TTA-TAAATAT
1 TTATTAAATAT
94055 ATAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTAAATATTT
Found at i:94775 original size:18 final size:17
Alignment explanation
Indices: 94752--94796 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
94742 TCTTTTCAAA
94752 TTTTTATTTATTTATTAT
1 TTTTTATTTATTTA-TAT
*
94770 TTTTTATAATATTTATAT
1 TTTTTAT-TTATTTATAT
*
94788 GTTTTATTT
1 TTTTTATTT
94797 TTATTTGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTATTTATTTATAT
Found at i:96463 original size:14 final size:14
Alignment explanation
Indices: 96425--96478 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
96415 ATTTTAAATA
*
96425 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
96439 TTTTACATTTGCAT
1 ATTTACATTTGCAT
96453 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
96468 CTTTGCATTTG
1 ATTTACATTTG
96479 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:103100 original size:112 final size:112
Alignment explanation
Indices: 102890--103666 Score: 1342
Period size: 112 Copynumber: 6.9 Consensus size: 112
102880 TCAAATCCAC
* *
102890 TTGATGGATCATTCATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCA-ACATTGCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
102955 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
65 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
* *
103003 TTGATGGATCAACATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAA
1 TTGATGGATCAACATTGCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
103068 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
103115 TTGATGGATCAACATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TTGATGGATCAACATTGCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
103180 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
103227 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
103292 AGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGTTTAAATTCATCAT
65 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
103339 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
103404 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
65 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
103452 TTGATGGATCAACATTGCCAGAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTGCCAGA-AAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * * *
103517 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCAC
64 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
* *** *
103566 TTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
103631 AGTTCATAATGAGAAGAGCTTGTTCAAC-TTTTGTTT
65 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
103667 GATACTATCA
Statistics
Matches: 644, Mismatches: 17, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
112 351 0.55
113 190 0.30
114 103 0.16
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (112 bp):
TTGATGGATCAACATTGCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
Found at i:103307 original size:225 final size:224
Alignment explanation
Indices: 102890--103666 Score: 1360
Period size: 225 Copynumber: 3.5 Consensus size: 224
102880 TCAAATCCAC
*
102890 TTGATGGATCATTCATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCA-ACATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
102955 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTG
65 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTG
* *
103020 CCAGA-TAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGA
130 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
103084 ACTTGTTCAACTTTTTGTTTAAATTCATCAT
195 ACTTGTTCAAC-TTTTGTTTAAATTCATCAT
103115 TTGATGGATCAACATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TTGATGGATCAACATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
103180 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGC
66 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGC
103245 CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
131 CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
103310 CTTGTTCAACTTTTGTTTAAATTCATCAT
196 CTTGTTCAACTTTTGTTTAAATTCATCAT
* *
103339 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGA-TAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
103404 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTG
65 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTG
103469 CCAGAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
130 CCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
* * *
103534 AATTTGTTCAACCTTTTGTTTGAATTCATCAC
194 AACTTGTTCAA-CTTTTGTTTAAATTCATCAT
* *** *
103566 TTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGATAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
103631 AGTTCATAATGAGAAGAGCTTGTTCAAC-TTTTGTTT
65 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
103667 GATACTATCA
Statistics
Matches: 532, Mismatches: 15, Indels: 9
0.96 0.03 0.02
Matches are distributed among these distances:
224 163 0.31
225 199 0.37
226 69 0.13
227 101 0.19
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (224 bp):
TTGATGGATCAACATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGC
CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
CTTGTTCAACTTTTGTTTAAATTCATCAT
Found at i:103990 original size:3 final size:3
Alignment explanation
Indices: 103982--104056 Score: 132
Period size: 3 Copynumber: 24.7 Consensus size: 3
103972 TTTTTATCCA
103982 TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
104028 TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
104057 AATATATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 66 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:104551 original size:18 final size:20
Alignment explanation
Indices: 104530--104566 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
104520 AGAACGAGAC
104530 AGAGAGACA-A-AAAAAAAT
1 AGAGAGACATAGAAAAAAAT
104548 AGAGAGACATAGAAAAAAA
1 AGAGAGACATAGAAAAAAA
104567 AAACAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.05
Consensus pattern (20 bp):
AGAGAGACATAGAAAAAAAT
Found at i:104552 original size:24 final size:23
Alignment explanation
Indices: 104525--104575 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
104515 GATATAGAAC
* *
104525 GAGACAGAGAGACAAAAAAAAATA
1 GAGACACAGAGA-AAAAAAAAACA
* *
104549 GAGAGACATAGAAAAAAAAAACA
1 GAGACACAGAGAAAAAAAAAACA
104572 GAGA
1 GAGA
104576 AAATACAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.67, C:0.08, G:0.22, T:0.04
Consensus pattern (23 bp):
GAGACACAGAGAAAAAAAAAACA
Found at i:105382 original size:18 final size:17
Alignment explanation
Indices: 105348--105393 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
105338 TAGATTTTTA
*
105348 ATTTTATT-TTTCGTTT
1 ATTTTATTGTTTCATTT
105364 ATTTTATATGTTTCATTT
1 ATTTTAT-TGTTTCATTT
105382 ATTTTATTGTTT
1 ATTTTATTGTTT
105394 TTAATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 14 0.52
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (17 bp):
ATTTTATTGTTTCATTT
Found at i:105459 original size:13 final size:13
Alignment explanation
Indices: 105431--105465 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
105421 TTTTATTATA
105431 TTATTAAATA-TT
1 TTATTAAATATTT
105443 TTATTAAATATTT
1 TTATTAAATATTT
105456 TTA-TAAATAT
1 TTATTAAATAT
105466 ATAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTAAATATTT
Found at i:110321 original size:38 final size:38
Alignment explanation
Indices: 110270--110346 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
110260 GATCCATAGC
110270 CAATAAATCTCCCTTATAACTAGCCTCCACCTCCTGCA
1 CAATAAATCTCCCTTATAACTAGCCTCCACCTCCTGCA
110308 CAATAAATCTCCCTTATAACTAGCCTCCACCTCCTGCA
1 CAATAAATCTCCCTTATAACTAGCCTCCACCTCCTGCA
110346 C
1 C
110347 CCTCGGAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.40, G:0.05, T:0.26
Consensus pattern (38 bp):
CAATAAATCTCCCTTATAACTAGCCTCCACCTCCTGCA
Found at i:116050 original size:2 final size:2
Alignment explanation
Indices: 116045--116072 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
116035 GTATTTTTTA
116045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116073 TTGGAGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117309 original size:20 final size:21
Alignment explanation
Indices: 117280--117337 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
117270 AAATGACCAA
117280 CAAATTCGCAACGCGAA-CTC
1 CAAATTCGCAACGCGAATCTC
* * *
117300 CAATTTCGCAAC-CCAATTTC
1 CAAATTCGCAACGCGAATCTC
117320 CAAATTCGCAACGCGAAT
1 CAAATTCGCAACGCGAAT
117338 TTGTAAATCG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.77
21 4 0.13
ACGTcount: A:0.34, C:0.33, G:0.12, T:0.21
Consensus pattern (21 bp):
CAAATTCGCAACGCGAATCTC
Found at i:117388 original size:19 final size:20
Alignment explanation
Indices: 117364--117406 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
117354 AGAAGTCAAA
117364 TTCGCAAAGCG-AGTTTATT
1 TTCGCAAAGCGAAGTTTATT
* *
117383 TTCGCAACGCGAATTTTATT
1 TTCGCAAAGCGAAGTTTATT
117403 TTCG
1 TTCG
117407 AATTCGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
TTCGCAAAGCGAAGTTTATT
Found at i:117570 original size:22 final size:22
Alignment explanation
Indices: 117530--117575 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
117520 ACGACATCCG
**
117530 TCCCCATCTCCGGTGAAATACA
1 TCCCCATCTCCGGAAAAATACA
*
117552 TCCCCATCTCCGGAAAAATCCA
1 TCCCCATCTCCGGAAAAATACA
117574 TC
1 TC
117576 TATCTCCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.39, G:0.11, T:0.22
Consensus pattern (22 bp):
TCCCCATCTCCGGAAAAATACA
Found at i:119879 original size:4 final size:4
Alignment explanation
Indices: 119870--119911 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
119860 TTTTTCGGCA
* *
119870 TTAT TTAT TTAT TTAT TTAT TTAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
119912 TCAGCGACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:120083 original size:21 final size:21
Alignment explanation
Indices: 120057--120173 Score: 112
Period size: 21 Copynumber: 5.6 Consensus size: 21
120047 TTCACCTGTC
* *
120057 ATCGTTCAAGAGGCGCATCCT
1 ATCGTTCAAGAGGCCCCTCCT
120078 ATCGTTCAAGAGGCCCCT-CT
1 ATCGTTCAAGAGGCCCCTCCT
*
120098 CATCGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
* *
120120 ACCGTTCAAGAGGCCCCT-GT
1 ATCGTTCAAGAGGCCCCTCCT
* * * *
120140 CATTGTTCAAGAGGTCACTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
*
120162 ACCGTTCAAGAG
1 ATCGTTCAAGAG
120174 CCCGATTCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.03
21 75 0.96
22 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:120102 original size:42 final size:42
Alignment explanation
Indices: 120055--120173 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
120045 GATTCACCTG
* * *
120055 TCATCGTTCAAGAGGCGCATCCTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCATCCCACCGTTCAAGAGGCCCCTC
* *
120097 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCATCCCACCGTTCAAGAGGCCCCTC
* *
120139 TCATTGTTCAAGAGG-TCACTCCCACCGTTCAAGAG
1 TCATCGTTCAAGAGGCCCA-TCCCACCGTTCAAGAG
120174 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 67 0.99
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.23
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCATCCCACCGTTCAAGAGGCCCCTC
Found at i:121681 original size:65 final size:64
Alignment explanation
Indices: 121523--121681 Score: 266
Period size: 64 Copynumber: 2.5 Consensus size: 64
121513 TTAATTGAAT
121523 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
* *
121588 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTA-TAGATAAGAATTATTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATG-AGGAAATAAGAATTATTTTTTGCTTG
121652 TTTAATTGATTTTGTAAAAGTTGATTTGTT
1 TTTAATTGA-TTTGTAAAAGTTGATTTGTT
121682 GTTTTAAATT
Statistics
Matches: 90, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
64 65 0.72
65 25 0.28
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.51
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
Found at i:121730 original size:20 final size:20
Alignment explanation
Indices: 121705--121753 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
121695 ATTTGCATTA
121705 TGTTGAAGGCAAAAAAGACC
1 TGTTGAAGGCAAAAAAGACC
121725 TGTTGAAGGCAAAAAAGACC
1 TGTTGAAGGCAAAAAAGACC
121745 TGTTGAAGG
1 TGTTGAAGG
121754 TACACTTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (20 bp):
TGTTGAAGGCAAAAAAGACC
Found at i:121818 original size:40 final size:40
Alignment explanation
Indices: 121763--121872 Score: 166
Period size: 40 Copynumber: 2.8 Consensus size: 40
121753 GTACACTTTC
121763 GCAACGCGAAAGTCAAATTCGCGTTGCGATAGTCAAATTT
1 GCAACGCGAAAGTCAAATTCGCGTTGCGATAGTCAAATTT
*** * *
121803 GCAACGCGAAAGTCAAATTCGCAACGTGAAAGTCAAATTT
1 GCAACGCGAAAGTCAAATTCGCGTTGCGATAGTCAAATTT
*
121843 GCAACGCGAAAGTCAAATTGGCGTTGCGAT
1 GCAACGCGAAAGTCAAATTCGCGTTGCGAT
121873 TTTTACGTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (40 bp):
GCAACGCGAAAGTCAAATTCGCGTTGCGATAGTCAAATTT
Found at i:121871 original size:20 final size:20
Alignment explanation
Indices: 121760--121861 Score: 141
Period size: 20 Copynumber: 5.1 Consensus size: 20
121750 AAGGTACACT
121760 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*** *
121780 TTCGCGTTGCGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
121800 TTTGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
121820 TTCGCAACGTGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
121840 TTTGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
121860 TT
1 TT
121862 GGCGTTGCGA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:123279 original size:22 final size:22
Alignment explanation
Indices: 123254--123306 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
123244 GTCACACTTG
*
123254 TCACATGGTGGGAATAAAGTAC
1 TCACATGGAGGGAATAAAGTAC
123276 TCACATGGAGGGAATAAAGTAC
1 TCACATGGAGGGAATAAAGTAC
123298 TCACATGGA
1 TCACATGGA
123307 AGAGATAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (22 bp):
TCACATGGAGGGAATAAAGTAC
Found at i:123523 original size:25 final size:25
Alignment explanation
Indices: 123495--123546 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
123485 ATTATTTTCC
* *
123495 AAATAATGTACCCATAATAATGTTT
1 AAATAATGTACCCACAACAATGTTT
123520 AAATAATGTACCCACAACAATGTTT
1 AAATAATGTACCCACAACAATGTTT
123545 AA
1 AA
123547 TTGATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (25 bp):
AAATAATGTACCCACAACAATGTTT
Found at i:123734 original size:49 final size:48
Alignment explanation
Indices: 123652--123764 Score: 136
Period size: 49 Copynumber: 2.3 Consensus size: 48
123642 GCGATTTTCT
* * *
123652 CGTTTCGATTGTTGCGATAGTCAAATTCGCAACGCGAAAGTAAAATCCG
1 CGTTACGATT-TTGCGAAAGTCAAATTCACAACGCGAAAGTAAAATCCG
* * * *
123701 CGTTGCGATTATTGCGAAAGTCAAATTTACAACGCGAAAGTCAAATTCG
1 CGTTACGATT-TTGCGAAAGTCAAATTCACAACGCGAAAGTAAAATCCG
*
123750 CATTACGATTTTGCG
1 CGTTACGATTTTGCG
123765 TTGCGAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
48 5 0.09
49 50 0.91
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (48 bp):
CGTTACGATTTTGCGAAAGTCAAATTCACAACGCGAAAGTAAAATCCG
Found at i:124024 original size:18 final size:18
Alignment explanation
Indices: 124001--124036 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
123991 AAGCCGGTTG
124001 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
124019 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
124037 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:126334 original size:24 final size:24
Alignment explanation
Indices: 126300--126353 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
126290 CTGAAACATC
126300 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
126324 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
126348 ATCAAA
1 ATCAAA
126354 TTTCGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:126367 original size:24 final size:24
Alignment explanation
Indices: 126300--126367 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
126290 CTGAAACATC
* * *
126300 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATAATGACCAAG
** *
126324 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATAATGACCAAG
* *
126348 ATCAAATTTCGAATAATGAC
1 ATCAAAGTCCGAATAATGAC
126368 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATAATGACCAAG
Found at i:127116 original size:16 final size:15
Alignment explanation
Indices: 127093--127132 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
127083 AGAAATCATT
127093 AAAAAATTATATAGAA
1 AAAAAATTATATA-AA
* *
127109 ATAAAATTATGTAAA
1 AAAAAATTATATAAA
127124 AAAAAATTA
1 AAAAAATTA
127133 GAGATAGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAAATTATATAAA
Found at i:129254 original size:11 final size:11
Alignment explanation
Indices: 129240--129272 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
129230 TCGTTAAGAA
129240 CTCGAGTCGAG
1 CTCGAGTCGAG
*
129251 CTCGACTCGAG
1 CTCGAGTCGAG
129262 CTCGAGTCGAG
1 CTCGAGTCGAG
129273 TCCATTCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.30, G:0.33, T:0.18
Consensus pattern (11 bp):
CTCGAGTCGAG
Found at i:133845 original size:2 final size:2
Alignment explanation
Indices: 133838--133876 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
133828 TATTTGAGGC
133838 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
133877 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:137516 original size:14 final size:14
Alignment explanation
Indices: 137497--137525 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
137487 TGTTCTTGGG
137497 TTTATCTAATATTT
1 TTTATCTAATATTT
137511 TTTATCTAATATTT
1 TTTATCTAATATTT
137525 T
1 T
137526 CGATTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTATCTAATATTT
Found at i:141533 original size:258 final size:257
Alignment explanation
Indices: 141076--141589 Score: 974
Period size: 258 Copynumber: 2.0 Consensus size: 257
141066 GACAGACAAA
* *
141076 GCACGAGGCTCCATCCAGGAGATAACACATAATTCATTCATATTGCGTGCATCTTAGACATACTT
1 GCACGAGGCTCCATCCAAGAGATAACACATAATTCATTCATATTACGTGCATCTTAGACATACTT
141141 AGGTGCATCACATTCATCATTTTAGCATACACGTTTTTGCAGCTTTTAAAGTCAAGTTTTGACTT
66 AGGTGCATCACATTCATCATTTTAGCATACACGTTTTTGCAGCTTTTAAAGTCAAGTTTTGACTT
141206 CAGGATGAAGGATATTCGATTCTCAAGTGCCTTCAAAGAAGGATGGTGGTTGATTAACTCGGCAG
131 CAGGATGAAGGATATTCGATTCTCAAGTGCCTTCAAAGAAGGATGGTGGTTGATTAACTCGGCAG
*
141271 TAAGAAGCTACACCTCAACCAACTTGACATCTTAGAACCAATTTCAGATAGGTTCGAGAACT
196 TAAGAAGCTACACCTCAACCAACTTGACATATTAGAACCAATTTCAGATAGGTTCGAGAACT
141333 GCACGAGGCTCCATCCAAGAGATAACACATAATTCATTCATATTACGTGCATCTTAGACATACTT
1 GCACGAGGCTCCATCCAAGAGATAACACATAATTCATTCATATTACGTGCATCTTAGACATACTT
*
141398 AGGTGCATCACATTCATCATTTTAGCATACACGTTTTTTGCAGCTTTTAGAGTCAAGTTTTGACT
66 AGGTGCATCACATTCATCATTTTAGCATACACG-TTTTTGCAGCTTTTAAAGTCAAGTTTTGACT
141463 TCAGGATGAAGGATATTCGATTCTCAAGTGCCTTCAAAGAAGGATGGTGGTTGATTAACTCGGCA
130 TCAGGATGAAGGATATTCGATTCTCAAGTGCCTTCAAAGAAGGATGGTGGTTGATTAACTCGGCA
*
141528 GTAAGAAGCTACACCTCAACCGACTTGACATATTAGAACCAATTTCAGATAGGTTCGAGAAC
195 GTAAGAAGCTACACCTCAACCAACTTGACATATTAGAACCAATTTCAGATAGGTTCGAGAAC
141590 CAGTTCAAAA
Statistics
Matches: 251, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
257 96 0.38
258 155 0.62
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (257 bp):
GCACGAGGCTCCATCCAAGAGATAACACATAATTCATTCATATTACGTGCATCTTAGACATACTT
AGGTGCATCACATTCATCATTTTAGCATACACGTTTTTGCAGCTTTTAAAGTCAAGTTTTGACTT
CAGGATGAAGGATATTCGATTCTCAAGTGCCTTCAAAGAAGGATGGTGGTTGATTAACTCGGCAG
TAAGAAGCTACACCTCAACCAACTTGACATATTAGAACCAATTTCAGATAGGTTCGAGAACT
Found at i:141610 original size:16 final size:16
Alignment explanation
Indices: 141589--141619 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
141579 GGTTCGAGAA
141589 CCAGTTCAAAACAAAT
1 CCAGTTCAAAACAAAT
*
141605 CCAGTTCAACACAAA
1 CCAGTTCAAAACAAA
141620 CTCAACCATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.29, G:0.06, T:0.16
Consensus pattern (16 bp):
CCAGTTCAAAACAAAT
Found at i:141959 original size:106 final size:106
Alignment explanation
Indices: 141796--142459 Score: 1030
Period size: 106 Copynumber: 6.3 Consensus size: 106
141786 TCCAATTTCA
* * * * * *
141796 TTCAGAGTCTATTTCAACCTCGCAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
141861 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCAAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAAT
*
141902 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
141967 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAAT
* * * * *
142008 TTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
142073 CGACGAAGGGACCGCTGGTTGTC-AT-AACAACTTTCAAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAAT
*
142112 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
142177 CGACGAAGGGACCGTTGGTTGTCAATAAACAACTTTCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAAT
* *
142218 TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
142283 CAACAAAGGGACCGCTGGTTGTCAACAAACAAC-TTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTC-CAAT
*
142324 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
142389 CGACGAAGGGACCGCTGGTTGTCAACAAATAA-TTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTC-CAAT
* * *
142430 TTCAAAGCCAGTTTCAACTTCACAACGAAG
1 TTCAGAGCCAATTTCAACTTCACAGCGAAG
142460 CCGCTGTTTC
Statistics
Matches: 514, Mismatches: 40, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
104 93 0.18
105 7 0.01
106 414 0.81
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAAT
Found at i:142369 original size:316 final size:318
Alignment explanation
Indices: 141796--142459 Score: 1030
Period size: 316 Copynumber: 2.1 Consensus size: 318
141786 TCCAATTTCA
* * * *
141796 TTCAGAGTCTATTTCAACCTCGCAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
141861 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCAAATTTCAGAGCCAATTTCAACTTCACA
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCAAATTTCAGAGCCAATTTCAACTTCACA
* * * *
141926 GCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
131 GCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCA
* * * * * *
141991 ATAAACAATTTTCCAATTTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACA
196 ACAAACAATTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTGGACTCCAGACA
* *
142056 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCATA-ACA-ACTTTC-AAAT
261 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA-ACAAATAATTTCTAAAT
* * *
142112 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
142177 CGACGAAGGGACCGTTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCATA
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCAAATTTCAGAGCCAATTTCAACTTCACA
142242 GCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCA
131 GCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCA
* *
142307 ACAAACAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
196 ACAAACAA-TTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTGGACTCCAGAC
*
142371 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAAT
260 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTAAAT
* * *
142430 TTCAAAGCCAGTTTCAACTTCACAACGAAG
1 TTCAGAGCCAATTTCAACTTCACAGCGAAG
142460 CCGCTGTTTC
Statistics
Matches: 316, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
315 1 0.00
316 277 0.88
317 8 0.03
318 30 0.09
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (318 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCAAATTTCAGAGCCAATTTCAACTTCACA
GCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCA
ACAAACAATTCTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTGGACTCCAGACA
ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTAAAT
Found at i:142496 original size:57 final size:62
Alignment explanation
Indices: 142379--142509 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 62
142369 ACAACGCAAG
* *
142379 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCAGT
1 TTCAACTTCACAACGAA-GGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCAAT
* * *
142442 TTCAACTTCACAACGAA-G-CCGCT-GTT-TCAATAAA-CATTTCTCAATTTCAGAGCCAAT
1 TTCAACTTCACAACGAAGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCAAT
142499 TTC-ACTTCACA
1 TTCAACTTCACA
142510 GCAAGGATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 8 0.13
57 23 0.37
58 7 0.11
59 3 0.05
60 5 0.08
61 1 0.02
63 16 0.25
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (62 bp):
TTCAACTTCACAACGAAGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCAAT
Found at i:142542 original size:161 final size:161
Alignment explanation
Indices: 142273--142614 Score: 489
Period size: 161 Copynumber: 2.1 Consensus size: 161
142263 ACAACACAAG
*
142273 TTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAA--GACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTT
* *
142338 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
64 CAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCG
* *
142403 CTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCAGT
129 CTGGTTGTCAACAAACAA---CT---TTTCAAAGCCAAT
* *
142442 TTCAACTTCACAACGAAG-CCGCT-GTT-TCAATAAAC-ATTTCTCAATTTCAGAGCCAATTTC-
1 TTCAACTTCACAACGAAGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
*
142502 ACTTCACAGC-AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCT
66 ACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCT
*
142566 GGTTGTCAGCAAACAACTTTTCAAAGCCAAT
131 GGTTGTCAACAAACAACTTTTCAAAGCCAAT
142597 TTCAACTTCACAACGAAG
1 TTCAACTTCACAACGAAG
142615 GATATTGGAC
Statistics
Matches: 164, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
155 30 0.18
158 2 0.01
161 66 0.40
162 9 0.05
163 24 0.15
164 8 0.05
165 3 0.02
166 5 0.03
167 1 0.01
169 16 0.10
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (161 bp):
TTCAACTTCACAACGAAGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
ACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCT
GGTTGTCAACAAACAACTTTTCAAAGCCAAT
Found at i:142544 original size:267 final size:261
Alignment explanation
Indices: 142198--142717 Score: 868
Period size: 267 Copynumber: 2.0 Consensus size: 261
142188 CCGTTGGTTG
*
142198 TCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCCAG
1 TCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
142263 ACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCA
66 ACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAA---CT---TTTCA
*
142328 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
125 AAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT--C-AC
*
142393 GAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCAGTTTCAACTTCACAACGA
187 GAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCACTTTCAACTTCACAACGA
142458 AGCCGCTGTT
252 AGCCGCTGTT
142468 TCAATAAAC-A-TTTCTCAATTTCAGAGCCAATTTC-ACTTCACAGC-AAGGATATTGGACTCCA
1 TCAATAAACAACTTTC-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCA
* *
142529 GACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAGCAAACAACTTTTCAAAGCC
65 GACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTTTCAAAGCC
142594 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAGGGAC
130 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAGGGAC
*
142659 CGCTGGTTGTCAACAAATAATTTCTCAATTTCAGAGCCACTTTCAACTTCACAACGAAG
195 CGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCACTTTCAACTTCACAACGAAG
142718 GATATTGGAC
Statistics
Matches: 243, Mismatches: 6, Indels: 14
0.92 0.02 0.05
Matches are distributed among these distances:
258 67 0.28
259 1 0.00
261 63 0.26
264 2 0.01
267 68 0.28
268 13 0.05
269 20 0.08
270 9 0.04
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (261 bp):
TCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
ACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTTTCAAAGCCA
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAGGGACC
GCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCCACTTTCAACTTCACAACGAAGCCGCTGT
T
Found at i:142748 original size:470 final size:477
Alignment explanation
Indices: 141957--142928 Score: 1437
Period size: 470 Copynumber: 2.0 Consensus size: 477
141947 ACAACGCAAG
* * *
141957 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAATTTCAGAGTCTATTT
1 TTCAACTTCACAACGAA--GACCGCTGGTTGTCAATAAACAATTTTCCAATTTCAGAGCCAATTT
* * *
142022 CAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
64 CAACTTCACAGCGAAGAAAATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCG
* * *
142087 CTGGTTGTCATAACAACTTTCAAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
129 CTGGTTGTCAAAACAAC-TT---ATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
* * *
142152 TCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAACTTTCCAA
190 TCCAGACAACGCAAGTTCAACTT-ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTCCAA
* *
142217 TTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTC
254 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTC
142282 ACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCAC
319 ACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCAC
*
142347 AACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
384 AACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
* *
142412 AACAAATAATTTCTCAATTTCAAAGCCAGT
449 AACAAA-AACTTCTCAATTTCAAAGCCAAT
142442 TTCAACTTCACAACGAAG-CCGCT-GTT-TCAATAAAC-A-TTTCTCAATTTCAGAGCCAATTTC
1 TTCAACTTCACAACGAAGACCGCTGGTTGTCAATAAACAATTTTC-CAATTTCAGAGCCAATTTC
* *
142502 -ACTTCACAGC-AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGC
65 AACTTCACAGCGAAGAAAATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGC
142565 TGGTTGTCAGCAAACAAC-T-TTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
130 TGGTTGTCA--AAACAACTTATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
142628 AGACAACGCAAGTTCAACTT-C-ACGAAGGGACCGCTGGTTGTCAACAAATAA-TTTCTCAATTT
193 AGACAACGCAAGTTCAACTTACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTC-CAATTT
* * * * * *
142690 CAGAGCCACTTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCACGTTCAACTTTACG
257 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACA
* * * *
142755 ACGAAGGGACCGCTGGTTGTCAATAAATAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
322 ACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
* * *
142820 GAAGGATATTGGACTCCAGATAACACATGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAAC
387 GAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
*
142885 AAAAACTTCTCAATTTCAGAGCCAAT
452 AAAAACTTCTCAATTTCAAAGCCAAT
*
142911 TTCAACTTCACAGCGAAG
1 TTCAACTTCACAACGAAG
142929 GATATTGGCG
Statistics
Matches: 448, Mismatches: 35, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
469 41 0.09
470 215 0.48
471 1 0.00
473 61 0.14
477 59 0.13
478 13 0.03
479 24 0.05
480 9 0.02
481 3 0.01
482 5 0.01
483 1 0.00
485 16 0.04
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (477 bp):
TTCAACTTCACAACGAAGACCGCTGGTTGTCAATAAACAATTTTCCAATTTCAGAGCCAATTTCA
ACTTCACAGCGAAGAAAATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCT
GGTTGTCAAAACAACTTATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
CAACGCAAGTTCAACTTACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTCCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACAA
AGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
GATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAA
ACTTCTCAATTTCAAAGCCAAT
Found at i:142809 original size:106 final size:106
Alignment explanation
Indices: 142442--143369 Score: 1231
Period size: 106 Copynumber: 8.9 Consensus size: 106
142432 CAAAGCCAGT
* *
142442 TTCAACTTCACAACGAA--G-CCGCT-GTT-TCAATAAAC-ATTTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
* *
142501 C-ACTTCACAGC-AAGGATATTGGACTCCAGACAACACAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
142540 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAGCAAACAA---CT---TTTCAAAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
142599 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
142640 TTCAACTT--C-ACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAGAGCCACTTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
* *
142702 CAACTTCACAACGAAGGATATTGGACTCTAGACAACGCACG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
142743 TTCAACTTTACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
* * *
142808 CAACTTCACAACGAAGGATATTGGACTCCAGATAACACATG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
142849 TTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAA-AACTTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
* *
142913 CAACTTCACAGCGAAGGATATTGGCGAAGGATATGGACTCCAGACAACGCATG
66 CAACTTCACAACGAAGG--A-T--------AT-TGGACTCCAGACAACGCAAG
*
142966 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
* * *
143031 CAACTTCACAATGAAAGATATTGAACTCCAGACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
143072 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
*
143137 CAACTTCACAGCGAAGGATATTGGACTCCA-ACAACGCAAG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
143177 TTCAACTTCACGACGAAGGGACCGCTGGTTGT---C-AACAATTTC-CAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
* * *
143237 CAACTTCACAGCGAAGGATATTGGACTCGAGACAACAC-AG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * * ** *
143277 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
*
143342 CAACTTCACGACGAAGGATATTGGACTC
66 CAACTTCACAACGAAGGATATTGGACTC
143370 GGAACAATGC
Statistics
Matches: 747, Mismatches: 47, Indels: 65
0.87 0.05 0.08
Matches are distributed among these distances:
97 28 0.04
98 33 0.04
99 9 0.01
100 117 0.16
101 22 0.03
102 3 0.00
103 68 0.09
104 10 0.01
105 124 0.17
106 230 0.31
107 3 0.00
108 1 0.00
115 1 0.00
116 3 0.00
117 56 0.07
118 39 0.05
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCAATTT
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:142817 original size:364 final size:370
Alignment explanation
Indices: 142109--142823 Score: 1163
Period size: 364 Copynumber: 1.9 Consensus size: 370
142099 ACAACTTTCA
* *
142109 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
* * * *
142174 TCACGACGAAGGGACCGTTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTC
66 TCACAACGAAGGGACCGCTGGTTGTCAACAAACAAC-TT---ATTTCAAAGCCAATTTCAACTTC
* *
142239 ATAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGTTG
127 ACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTT-ACAACAAAGGGACCGCTGGTTG
142304 TCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
191 TCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
142369 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCA
256 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCA
*
142434 AAGCCAGTTTCAACTTCACAACGAAGCCGCTGTTTCAATAAACATTTCTC
321 AAGCCAATTTCAACTTCACAACGAAGCCGCTGTTTCAATAAACATTTCTC
142484 AATTTCAGAGCCAATTTC-ACTTCACAGC-AAGGATATTGGACTCCAGACAACACAAGTTCAACT
1 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
*
142547 TCACAACGAAGGGACCGCTGGTTGTCAGCAAACAAC-T-TTTCAAAGCCAATTTCAACTTCACAA
66 TCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTATTTCAAAGCCAATTTCAACTTCACAA
* *
142610 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT-C-ACGAAGGGACCGCTGGTTGTCAAC
131 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTACAACAAAGGGACCGCTGGTTGTCAAC
* * * *
142673 AAATAATTTCTCAATTTCAGAGCCACTTTCAACTTCACAACGAAGGATATTGGACTCTAGACAAC
196 AAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
* * * *
142738 GCACGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCTCAATTTCAGAGCC
261 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCC
142803 AATTTCAACTTCACAACGAAG
326 AATTTCAACTTCACAACGAAG
142824 GATATTGGAC
Statistics
Matches: 320, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
364 165 0.52
365 1 0.00
367 60 0.19
371 1 0.00
373 65 0.20
374 10 0.03
375 18 0.06
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (370 bp):
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
TCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTATTTCAAAGCCAATTTCAACTTCACAA
CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTACAACAAAGGGACCGCTGGTTGTCAAC
AAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAATTTCAAAGCC
AATTTCAACTTCACAACGAAGCCGCTGTTTCAATAAACATTTCTC
Found at i:143021 original size:329 final size:313
Alignment explanation
Indices: 142442--143369 Score: 1280
Period size: 329 Copynumber: 3.0 Consensus size: 313
142432 CAAAGCCAGT
* *
142442 TTCAACTTCACAACGAA--G-CCGCT-GTT-TCAATAAACATTTCTCAATTTCAGAGCCAATTTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAATTTCTCAATTTCAGAGCCAATTTC
*
142502 -ACTTCACAGC-AAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGC
66 AACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGC
* * *
142565 TGGTTGTCAGCAAACAA--CT---TTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
131 TGGTTGTCAACAAA-AATTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
*
142625 TCCAGACAACGCAAGTTCAACTT--CACGAAGGGACCGCTGGTTGTCAACAAATAATTTCTCAAT
195 TCCAGACAACGC-AGTTCAACTTCACACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAAT
* * *
142688 TTCAGAGCCACTTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCACG
259 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
142743 TTCAACTTTACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCTCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-AATTTCTCAATTTCAGAGCCAATTT
* * * *
142808 CAACTTCACAACGAAGGATATTGGACTCCAGATAACACATGTTCAACTTCATGACGAAGGGACCG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCG
142873 CTGGTTGTCAACAAAAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGC
130 CTGGTTGTCAACAAAAA-TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG--A-T---
142938 GAAGGATATGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
188 -----AT-TGGACTCCAGACAACGCA-GTTCAACTTCAC-ACGAAGGGACCGCTGGTTGTCAACA
* * * *
143003 AACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAAGATATTGAACTCCAGACAACG
245 AACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
143068 CAAG
310 CAAG
*
143072 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-AATTTCTCAATTTCAGAGCCAATTT
*
143137 CAACTTCACAGCGAAGGATATTGGACTCCA-ACAACGCAAGTTCAACTTCACGACGAAGGGACCG
65 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCG
*
143201 CTGGTTGTCAAC--AATTTC-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
130 CTGGTTGTCAACAAAAATTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * * * **
143263 TCGAGACAACACAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGT
195 TCCAGACAACGCAGTTCAACTTCAC-ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAAT
* *
143328 TCCAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTC
259 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
143370 GGAACAATGC
Statistics
Matches: 556, Mismatches: 41, Indels: 50
0.86 0.06 0.08
Matches are distributed among these distances:
301 15 0.03
303 1 0.00
304 5 0.01
305 3 0.01
306 8 0.01
307 25 0.04
308 11 0.02
309 62 0.11
311 85 0.15
312 16 0.03
313 2 0.00
314 30 0.05
316 1 0.00
317 1 0.00
321 1 0.00
322 1 0.00
324 35 0.06
325 6 0.01
326 28 0.05
328 43 0.08
329 177 0.32
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (313 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAATTTCTCAATTTCAGAGCCAATTTC
AACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGC
TGGTTGTCAACAAAAATTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
CCAGACAACGCAGTTCAACTTCACACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:143077 original size:223 final size:224
Alignment explanation
Indices: 142713--143365 Score: 925
Period size: 223 Copynumber: 3.0 Consensus size: 224
142703 AACTTCACAA
* * *
142713 CGAAGGATATTGGACTCTAGACAACGCACGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATA-TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * *
142778 TAAATAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAA
65 CAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
* * * *
142843 CACATGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAA-AACTTCTCAATTTCAGAGC
130 CACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGC
142907 CAATTTCAACTTCACAGCGAAGGATATTGG
195 CAATTTCAACTTCACAGCGAAGGATATTGG
*
142937 CGAAGGATATGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
1 CGAAGGATATGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
* * * *
143002 AAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAAGATATTGAACTCCAGACAAC
66 AAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
* *
143067 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
131 ACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
143132 AATTTCAACTTCACAGCGAAGG--A-T--
196 AATTTCAACTTCACAGCGAAGGATATTGG
143156 ------AT-TGGACTCCA-ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT---C
1 CGAAGGATATGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
* *
143210 -AACAATTTC-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAAC
66 AAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
* * ** *
143273 AC-AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCC
131 ACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
143337 AATTTCAACTTCAC-GACGAAGGATATTGG
196 AATTTCAACTTCACAG-CGAAGGATATTGG
143366 ACTCGGAACA
Statistics
Matches: 392, Mismatches: 30, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
204 1 0.00
205 76 0.19
206 50 0.13
207 9 0.02
208 2 0.01
211 41 0.10
212 9 0.02
213 2 0.01
221 1 0.00
222 1 0.00
223 151 0.39
224 49 0.12
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (224 bp):
CGAAGGATATGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
AAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
ACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
AATTTCAACTTCACAGCGAAGGATATTGG
Found at i:145211 original size:14 final size:14
Alignment explanation
Indices: 145192--145220 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
145182 TGTTCTTGGG
145192 TTTATCTAATATTT
1 TTTATCTAATATTT
145206 TTTATCTAATATTT
1 TTTATCTAATATTT
145220 T
1 T
145221 CGATTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTATCTAATATTT
Found at i:146653 original size:31 final size:31
Alignment explanation
Indices: 146595--146653 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
146585 TGTGCTTAAG
* **
146595 GTTATAAACGTTACCACTTTAGGTGTCTGAC
1 GTTACAAACGTTACCACTTTAAATGTCTGAC
*
146626 GTTACAAATGTTACCACTTTAAATGTCT
1 GTTACAAACGTTACCACTTTAAATGTCT
146654 CGATGTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (31 bp):
GTTACAAACGTTACCACTTTAAATGTCTGAC
Found at i:148760 original size:24 final size:24
Alignment explanation
Indices: 148733--148784 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
148723 AACGGATATA
*
148733 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
148757 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
148781 TCAA
1 TCAA
148785 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:148871 original size:24 final size:24
Alignment explanation
Indices: 148756--148871 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
148746 CATAAATCAG
*
148756 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCATATCAG-AATCCAT
* * *
148780 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCATATCAGAATCCAT
*
148804 GTCAAGTATCATATCAAAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
*
148828 GTC-AGATTTCATATCAGAATCCAT
1 GTCAAG-TATCATATCAGAATCCAT
*
148852 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCATATCAGAAT
148872 TCAAATCAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
23 5 0.06
24 71 0.91
25 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:148880 original size:24 final size:24
Alignment explanation
Indices: 148756--148889 Score: 119
Period size: 24 Copynumber: 5.6 Consensus size: 24
148746 CATAAATCAG
* *
148756 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAA
*
148780 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
* * *
148804 GTCAAGTATCATATCAAAATCCAT
1 GTCAAGTATCAGATCAGAATCCAA
* * *
148828 GTC-AGATTTCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAA
*
148852 GTCAAGTATCAGATCAGAATTCAA
1 GTCAAGTATCAGATCAGAATCCAA
* **
148876 ATCAAAAATCAGAT
1 GTCAAGTATCAGAT
148890 AAAATATGCA
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
23 5 0.05
24 84 0.92
25 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:151436 original size:18 final size:18
Alignment explanation
Indices: 151415--151451 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
151405 GATCAACGGC
151415 TCAACGGGTCGGGTCGGG
1 TCAACGGGTCGGGTCGGG
151433 TCAACGGGTCGGGTCGGG
1 TCAACGGGTCGGGTCGGG
151451 T
1 T
151452 TATGACCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.19
Consensus pattern (18 bp):
TCAACGGGTCGGGTCGGG
Found at i:152357 original size:2 final size:2
Alignment explanation
Indices: 152350--152385 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
152340 TAAAAGAAAC
152350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
152386 CTGAAACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:161437 original size:30 final size:31
Alignment explanation
Indices: 161376--161456 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 31
161366 TTATAATTTT
* * *
161376 TATTTATTTTTTATTTTTTATA-TGATCTAA
1 TATTTAATATTTATTTTTTAAATTGATCTAA
*
161406 TATTTAATATTTATTTTTTAAATTTAT-TAA
1 TATTTAATATTTATTTTTTAAATTGATCTAA
* *
161436 TACTTAA-A-TTAATTTTTAAAT
1 TATTTAATATTTATTTTTTAAAT
161457 ATGTAAATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 12 0.27
29 1 0.02
30 28 0.64
31 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (31 bp):
TATTTAATATTTATTTTTTAAATTGATCTAA
Found at i:161449 original size:20 final size:22
Alignment explanation
Indices: 161426--161472 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
161416 TTATTTTTTA
161426 AATTTATT-AATACT-TAAATT-
1 AATTTATTAAATA-TGTAAATTG
161446 AATTT-TTAAATATGTAAATTG
1 AATTTATTAAATATGTAAATTG
161467 AATTTA
1 AATTTA
161473 GATATTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 3 0.13
20 15 0.65
21 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
AATTTATTAAATATGTAAATTG
Found at i:172746 original size:15 final size:15
Alignment explanation
Indices: 172726--172758 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
172716 ATATTTTTAT
172726 TTTAAAATAA-TTAAA
1 TTTAAAA-AAGTTAAA
172741 TTTAAAAAAGTTAAA
1 TTTAAAAAAGTTAAA
172756 TTT
1 TTT
172759 GATTCTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TTTAAAAAAGTTAAA
Found at i:175678 original size:6 final size:6
Alignment explanation
Indices: 175663--175701 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
175653 GTATTACCCT
*
175663 CGACCC CGACCA CGACCA CGACCA CGACC- CGACC- CGACC
1 CGACCA CGACCA CGACCA CGACCA CGACCA CGACCA CGACC
175702 CTAGACGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.26, C:0.56, G:0.18, T:0.00
Consensus pattern (6 bp):
CGACCA
Found at i:176560 original size:20 final size:20
Alignment explanation
Indices: 176535--176604 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
176525 TTTTAAAACT
176535 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
176555 ATCGCAA--CGACACTGTAGATT
1 ATCGCAACGCGA-AATG--GAAA
176576 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
176596 ATCGAAACG
1 ATCGCAACG
176605 ACACTGTAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 17 0.45
21 9 0.24
22 3 0.08
23 3 0.08
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:176591 original size:41 final size:41
Alignment explanation
Indices: 176532--176632 Score: 184
Period size: 41 Copynumber: 2.5 Consensus size: 41
176522 CATTTTTAAA
*
176532 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGAAACGACACTGTAG
*
176573 ATTATCGCAACGCGAAATGGAAAATCGAAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGAAACGACACTGTAG
176614 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
176633 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.16
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGAAACGACACTGTAG
Found at i:176695 original size:21 final size:21
Alignment explanation
Indices: 176635--176695 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 21
176625 GCGAAATGTT
*
176635 GCGATTTTCAACTATCGCAGC
1 GCGATTTTCAACTATCGCAAC
** ** * *
176656 GCGAAATGGAA-AACCGCAAC
1 GCGATTTTCAACTATCGCAAC
176676 GCGATTTTCAACTATCGCAA
1 GCGATTTTCAACTATCGCAA
176696 AACGAAATGC
Statistics
Matches: 26, Mismatches: 13, Indels: 2
0.63 0.32 0.05
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAC
Found at i:178800 original size:14 final size:15
Alignment explanation
Indices: 178781--178812 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
178771 TTTAGTCCTA
178781 ATTTAG-ATTGTTTT
1 ATTTAGTATTGTTTT
178795 ATTTAGTATTGTTTT
1 ATTTAGTATTGTTTT
178810 ATT
1 ATT
178813 ATTATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (15 bp):
ATTTAGTATTGTTTT
Found at i:178969 original size:13 final size:13
Alignment explanation
Indices: 178934--178979 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
178924 TTTTTGGTTT
178934 TTTATTTCATACTA
1 TTTATTT-ATACTA
178948 -TTATATTATACTA
1 TTTAT-TTATACTA
*
178961 TTTATTTAT-TTA
1 TTTATTTATACTA
178973 TTTATTT
1 TTTATTT
178980 TTTCATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 9 0.31
13 14 0.48
14 6 0.21
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATTTATACTA
Found at i:179054 original size:5 final size:5
Alignment explanation
Indices: 179024--179068 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
179014 AGCTAACCTT
* * *
179024 TTTTA TATTA TTATA TTTTA CTTTA TTTTA TTATTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTT
179069 CTATTATCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:179073 original size:15 final size:16
Alignment explanation
Indices: 179045--179086 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
179035 TATATTTTAC
*
179045 TTTATTTTATTATTAT
1 TTTATTTTACTATTAT
179061 TTTATTTT-CTATTAT
1 TTTATTTTACTATTAT
*
179076 CTT-TTTTACTA
1 TTTATTTTACTA
179087 ACTTTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTTACTATTAT
Found at i:179144 original size:2 final size:2
Alignment explanation
Indices: 179137--179178 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
179127 ATATTTGTAG
179137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
179179 TTCCCTTTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.