Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_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: 2457469
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:649764 original size:249 final size:246
Alignment explanation
Indices: 649287--650240 Score: 1132
Period size: 249 Copynumber: 3.8 Consensus size: 246
649277 GCTCAAGGCC
* * * *
649287 AGAAGGGTTATCTACC-ACCAAGATCTTCGAGTTCAACTACACTCAGCTCCAAGGCACATCATTT
1 AGAA-GGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
* * * * *
649351 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAATACCTTTGAGTTCGACTACGCTCA
65 GCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAA--AGA-ACCTTCGAGTTCGACTACACTCA
* * * * * * * *
649416 GCTCCAACGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGACCTG
127 GCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTT
* * * * * * * *
649478 CGAGTTTGATTACACTTAGCTTCGAGGGCACATCATTTGTAGCATAACTTAAGTCG
192 CGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
*
649534 AGAAGAGTTATCTGCCAACTAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATT
1 AGAAG-GTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* *
649599 TGCAGCATATCTTAAGTCGAGAAGGGCTATCTGCTAAAGAACC-TCGAGTTCGATTACACTCAGC
64 TGCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGAACCTTCGAGTTCGACTACACTCAGC
* * *
649663 TTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAATACCTT
129 -TCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTT
* * *
649728 CTAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTATAACTTAAGTCG
192 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* *
649783 AGAATGGTTATCTGCCAAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAA-GGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* *
649848 TGCAGTATATCTTAAGTCGAGAAGGGCTATCTGCCAAAG-ACCCTCGAGTTCGA-TCACACTCAG
64 TGCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGAACCTTCGAGTTCGACT-ACACTCAG
* * * *
649911 CTACGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATGACCAAAAGACCT
128 CT-CCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCT
* * *
649976 TCGAGTTCGACGACGCTCAGCTCTAAGGCATATCATTTGCAACATAACTTAAGTCG
191 TCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* * * *
650032 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGACATATCATT
1 AGAA-GGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* * * * * * *
650097 TACAGTATAGCTTAAGTCAAGAAGGGATATCTGCCAAAG-ACCTTCGAGTTCGACTACGCTAAGC
64 TGCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGAACCTTCGAGTTCGACTACACTCAGC
* * * * * *
650161 TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
129 TCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTC
*
650226 AAGTTCGACTACGCT
193 GAGTTCGACTACGCT
650241 TAACTCAGAG
Statistics
Matches: 623, Mismatches: 69, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
245 18 0.03
246 44 0.07
247 15 0.02
248 70 0.11
249 450 0.72
250 26 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (246 bp):
AGAAGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTG
CAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGAACCTTCGAGTTCGACTACACTCAGCTC
CAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAG
TTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
Found at i:650822 original size:39 final size:38
Alignment explanation
Indices: 650769--650976 Score: 147
Period size: 37 Copynumber: 5.4 Consensus size: 38
650759 TTTTTATTTT
* **
650769 ATATATCTATATATATAGTTTGCAAATGGTTTTTGAAAAA
1 ATATATATA-ATATATAGTTTG-AAAACGTTTTTGAAAAA
* * *
650809 ATATATATAATATATGGTTTTGAAAACATGTTTGAAAACA
1 ATATATATAATATATAG-TTTGAAAACGTTTTTGAAAA-A
* * * * *
650849 TTTATATATTATATATATTTTTAAAATG-TTTTG--AAA
1 -ATATATATAATATATAGTTTGAAAACGTTTTTGAAAAA
* *
650885 ATAAATATAATATATAGTTTTTAAAACGTTTTTG-AAAA
1 ATATATATAATATATAG-TTTGAAAACGTTTTTGAAAAA
* * * *
650923 CT-TATATAATACATAGTTTTGAAAACATTTTTGAAAAC
1 ATATATATAATATATAG-TTTGAAAACGTTTTTGAAAAA
* *
650961 ATTTATATATTATATA
1 ATATATATAATATATA
650977 ATTTTTAAAA
Statistics
Matches: 132, Mismatches: 28, Indels: 17
0.75 0.16 0.10
Matches are distributed among these distances:
35 13 0.10
36 10 0.08
37 34 0.26
38 8 0.06
39 34 0.26
40 20 0.15
41 13 0.10
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (38 bp):
ATATATATAATATATAGTTTGAAAACGTTTTTGAAAAA
Found at i:650918 original size:37 final size:38
Alignment explanation
Indices: 650769--651100 Score: 196
Period size: 39 Copynumber: 8.7 Consensus size: 38
650759 TTTTTATTTT
* ** **
650769 ATATATCTATATATATAGTTTGCAAATGGTTTTTGAAAAA
1 ATATATATA-ATATATAGTTTTTAAAACGTTTTTG-AAAA
* * * *
650809 ATATATATAATATATGGTTTTGAAAACATGTTTGAAAA
1 ATATATATAATATATAGTTTTTAAAACGTTTTTGAAAA
* *
650847 CATTTATATATTATATATA-TTTTTAAAATG-TTTTG-AAA
1 -A--TATATATAATATATAGTTTTTAAAACGTTTTTGAAAA
*
650885 ATAAATATAATATATAGTTTTTAAAACGTTTTTGAAAA
1 ATATATATAATATATAGTTTTTAAAACGTTTTTGAAAA
* * * *
650923 CT-TATATAATACATAGTTTTGAAAACATTTTTGAAAA
1 ATATATATAATATATAGTTTTTAAAACGTTTTTGAAAA
* * * *
650960 CATTTATATATTATATAATTTTTAAAAAAC-ATTTT-AAAA
1 -ATATATATAATATATAGTTTTT--AAAACGTTTTTGAAAA
* * * * *
650999 ATATATATAATGTATAAATGTTTTCAAACATGTTTTCAAAA
1 ATATATATAATATAT-AGT-TTTTAAAACGT-TTTTGAAAA
** * * * * *
651040 CCATATATTATATATATTTTTTCAAACATTTTT--TAA
1 ATATATATAATATATAGTTTTTAAAACGTTTTTGAAAA
* *
651076 ATTTATATATTATAT-GTTTTTAAAA
1 ATATATATAATATATAGTTTTTAAAA
651101 TATTTTTATT
Statistics
Matches: 231, Mismatches: 46, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
35 21 0.09
36 22 0.10
37 37 0.16
38 32 0.14
39 56 0.24
40 30 0.13
41 33 0.14
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (38 bp):
ATATATATAATATATAGTTTTTAAAACGTTTTTGAAAA
Found at i:650956 original size:12 final size:12
Alignment explanation
Indices: 650939--650964 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
650929 TAATACATAG
650939 TTTTGAAAACAT
1 TTTTGAAAACAT
650951 TTTTGAAAACAT
1 TTTTGAAAACAT
650963 TT
1 TT
650965 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:650956 original size:113 final size:114
Alignment explanation
Indices: 650779--650986 Score: 321
Period size: 113 Copynumber: 1.8 Consensus size: 114
650769 ATATATCTAT
** * *
650779 ATATATAGTTTGCAAATGGTTTTTGAAAAAATATATATAATATATGGTTTTGAAAACATGTTTGA
1 ATATATAGTTTGCAAAACGTTTTTGAAAAAATATATATAATACATAGTTTTGAAAACATGTTTGA
650844 AAACATTTATATATTATATATATTTTTAAAATGTTTTGAAAATAAATATA
66 AAACATTTATATATTATATA-ATTTTTAAAATGTTTTGAAAATAAATATA
** * *
650894 ATATATAGTTTTTAAAACGTTTTTG-AAAACT-TATATAATACATAGTTTTGAAAACATTTTTGA
1 ATATATAGTTTGCAAAACGTTTTTGAAAAAATATATATAATACATAGTTTTGAAAACATGTTTGA
650957 AAACATTTATATATTATATAATTTTTAAAA
66 AAACATTTATATATTATATAATTTTTAAAA
650987 AACATTTTAA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
112 10 0.12
113 49 0.58
114 5 0.06
115 21 0.25
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (114 bp):
ATATATAGTTTGCAAAACGTTTTTGAAAAAATATATATAATACATAGTTTTGAAAACATGTTTGA
AAACATTTATATATTATATAATTTTTAAAATGTTTTGAAAATAAATATA
Found at i:650969 original size:76 final size:74
Alignment explanation
Indices: 650798--650986 Score: 195
Period size: 76 Copynumber: 2.5 Consensus size: 74
650788 TTGCAAATGG
* * *
650798 TTTTTGAAAAAATATATATAATATATGGTTTTGAAAACATGTTTGAAAACATTTATATATTATAT
1 TTTTTG-AAAAATATATATAATATATAGTTTTTAAAACATGTTTGAAAACA-TTATATA-TATAC
*
650863 ATATTTTTAAAA
63 ATATTTTAAAAA
* * *
650875 TGTTTTG-AAAATAAATATAATATATAGTTTTTAAAACGTTTTTGAAAAC-TTATATA-ATACAT
1 T-TTTTGAAAAATATATATAATATATAGTTTTTAAAACATGTTTGAAAACATTATATATATACAT
650937 AGTTTTGAAAACA
65 A-TTTT-AAAA-A
* * *
650950 TTTTTGAAAACATTTATATATTATATAATTTTTAAAA
1 TTTTTGAAAA-ATATATATAATATATAGTTTTTAAAA
650987 AACATTTTAA
Statistics
Matches: 95, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
72 6 0.06
73 4 0.04
74 15 0.16
75 5 0.05
76 59 0.62
77 1 0.01
78 5 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (74 bp):
TTTTTGAAAAATATATATAATATATAGTTTTTAAAACATGTTTGAAAACATTATATATATACATA
TTTTAAAAA
Found at i:651062 original size:39 final size:37
Alignment explanation
Indices: 650798--651107 Score: 184
Period size: 37 Copynumber: 8.1 Consensus size: 37
650788 TTGCAAATGG
* * *
650798 TTTTTGAAAAAATATATATAATATATGGTTTTGAAAACA
1 TTTTTGAAAACATATAT-T-ATATATAGTTTTTAAAACA
*
650837 TGTTTGAAAACATTTATATATTATATATA-TTTTT-AAA-A
1 TTTTTGAAAAC----ATATATTATATATAGTTTTTAAAACA
* * * *
650875 TGTTTTGAAAATAAATATAATATATAGTTTTTAAAACG
1 T-TTTTGAAAACATATATTATATATAGTTTTTAAAACA
* * * *
650913 TTTTTGAAAACTTATATAATACATAGTTTTGAAAACA
1 TTTTTGAAAACATATATTATATATAGTTTTTAAAACA
* *
650950 TTTTTGAAAACATTTATATATTATATAATTTTTAAAAAACA
1 TTTTTGAAAACATATAT-TA-TATATAGTTTTT--AAAACA
* * * * * *
650991 -TTTTAAAAATATATATAATGTATAAATGTTTTCAAACA
1 TTTTTGAAAACATATATTATATAT-AGT-TTTTAAAACA
* * *
651029 TGTTTTCAAAACCATATATTATATATATTTTTTCAAACA
1 T-TTTTGAAAA-CATATATTATATATAGTTTTTAAAACA
* ** *
651068 TTTTT-TAAATTTATA-TAT-TATATGTTTTTAAAATA
1 TTTTTGAAAACATATATTATATATA-GTTTTTAAAACA
651103 TTTTT
1 TTTTT
651108 ATTTTTTATT
Statistics
Matches: 215, Mismatches: 38, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
34 4 0.02
35 29 0.13
36 9 0.04
37 51 0.24
38 17 0.08
39 44 0.20
40 31 0.14
41 23 0.11
42 1 0.00
43 6 0.03
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (37 bp):
TTTTTGAAAACATATATTATATATAGTTTTTAAAACA
Found at i:651115 original size:7 final size:7
Alignment explanation
Indices: 651103--651165 Score: 58
Period size: 7 Copynumber: 9.1 Consensus size: 7
651093 TTTTAAAATA
651103 TTTTTAT
1 TTTTTAT
651110 TTTTTA-
1 TTTTTAT
*
651116 TTATT-T
1 TTTTTAT
*
651122 TTATTAT
1 TTTTTAT
*
651129 TATTTAT
1 TTTTTAT
*
651136 TATTTAT
1 TTTTTAT
*
651143 TTCTTAT
1 TTTTTAT
651150 TTATTTAT
1 TT-TTTAT
651158 TTTTTAT
1 TTTTTAT
651165 T
1 T
651166 AAGTGTTTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 9 0.19
7 32 0.68
8 6 0.13
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:651123 original size:11 final size:11
Alignment explanation
Indices: 651101--651165 Score: 77
Period size: 11 Copynumber: 6.4 Consensus size: 11
651091 GTTTTTAAAA
651101 TATTT-TTATT
1 TATTTATTATT
651111 T-TTTATTA-T
1 TATTTATTATT
651120 T-TTTATTA-T
1 TATTTATTATT
651129 TATTTATTATT
1 TATTTATTATT
*
651140 TATTTCTTATT
1 TATTTATTATT
*
651151 TATTTATTTTT
1 TATTTATTATT
651162 TATT
1 TATT
651166 AAGTGTTTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
9 14 0.29
10 11 0.22
11 24 0.49
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTATTATT
Found at i:652456 original size:5 final size:5
Alignment explanation
Indices: 652446--652472 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
652436 TTATTTCTGA
652446 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
652473 ATTTCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:652485 original size:2 final size:2
Alignment explanation
Indices: 652478--652550 Score: 103
Period size: 2 Copynumber: 37.0 Consensus size: 2
652468 TTTTAATTTC
652478 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
* * * *
652520 -T AT TT TT AT AT AC AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
652551 TTATTATTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:652644 original size:18 final size:17
Alignment explanation
Indices: 652599--652660 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
652589 CCTTTTATTT
652599 TATTTTATCTTATATATA
1 TATTTTAT-TTATATATA
*
652617 T-TTTTGATTTATTTCATA
1 TATTTT-ATTTATAT-ATA
* *
652635 TATTTTATTTTTATTTA
1 TATTTTATTTATATATA
652652 -ATTTTATTT
1 TATTTTATTT
652661 TGATTTATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 9 0.24
17 11 0.30
18 13 0.35
19 4 0.11
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTTTATTTATATATA
Found at i:652647 original size:20 final size:19
Alignment explanation
Indices: 652594--652678 Score: 65
Period size: 22 Copynumber: 4.5 Consensus size: 19
652584 TGTTTCCTTT
652594 TATTTTA-TTTTATCTTATA
1 TATTTTATTTTTAT-TTATA
652613 TATATTT-TTGATTTATTTCATA
1 TAT-TTTATT--TTTATTT-ATA
652635 TATTTTATTTTTA-TT-TA
1 TATTTTATTTTTATTTATA
*
652652 -ATTTTATTTTGATTTAT-
1 TATTTTATTTTTATTTATA
*
652669 TCTTTTATTT
1 TATTTTATTT
652679 ATTTCACTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
16 11 0.20
17 4 0.07
18 9 0.16
19 5 0.09
20 8 0.15
21 5 0.09
22 13 0.24
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTTTATTTTTATTTATA
Found at i:652657 original size:16 final size:16
Alignment explanation
Indices: 652636--652667 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
652626 TATTTCATAT
*
652636 ATTTTATTTTTATTTA
1 ATTTTATTTTGATTTA
652652 ATTTTATTTTGATTTA
1 ATTTTATTTTGATTTA
652668 TTCTTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
ATTTTATTTTGATTTA
Found at i:653139 original size:2 final size:2
Alignment explanation
Indices: 653132--653188 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
653122 GAAAGGTGGA
653132 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
653173 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
653189 GACTTTCATC
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:658828 original size:32 final size:31
Alignment explanation
Indices: 658787--658891 Score: 85
Period size: 32 Copynumber: 3.4 Consensus size: 31
658777 AGTCGAGGGT
658787 TTACCTATGTTCTACAGAACATATGGACAGAA
1 TTACCTATGTTCTACAGAACATATGGACAG-A
* * *
658819 TTACCTATG-TCTTTCGGGACATATGGACAG-
1 TTACCTATGTTC-TACAGAACATATGGACAGA
* *
658849 TATACCTAT-TT-TA-AGGAACATATGAACAGT
1 T-TACCTATGTTCTACA-GAACATATGGACAGA
*
658879 TTACCTAGGTTCT
1 TTACCTATGTTCT
658892 TAGGGACCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
29 19 0.33
30 4 0.07
31 11 0.19
32 24 0.41
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (31 bp):
TTACCTATGTTCTACAGAACATATGGACAGA
Found at i:658910 original size:31 final size:30
Alignment explanation
Indices: 658805--658911 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 30
658795 GTTCTACAGA
* *
658805 ACATATGGACAGAATTACCTA-TGTCTTTCGGG
1 ACATATGGACAG-TTTACCTAGT-TC-TTAGGG
* *
658837 ACATATGGACAGTATACCTA-TT-TTAAGGA
1 ACATATGGACAGTTTACCTAGTTCTT-AGGG
*
658866 ACATATGAACAGTTTACCTAGGTTCTTAGGG
1 ACATATGGACAGTTTACCTA-GTTCTTAGGG
*
658897 ACCTATGGACAGTTT
1 ACATATGGACAGTTT
658912 TCGAGGTTCT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
28 2 0.03
29 20 0.32
30 1 0.02
31 25 0.40
32 14 0.23
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (30 bp):
ACATATGGACAGTTTACCTAGTTCTTAGGG
Found at i:659740 original size:17 final size:16
Alignment explanation
Indices: 659718--659751 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
659708 CACGATACTG
659718 TTCATATCATATAATAC
1 TTCATA-CATATAATAC
*
659735 TTCATACGTATAATAC
1 TTCATACATATAATAC
659751 T
1 T
659752 ATTCATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (16 bp):
TTCATACATATAATAC
Found at i:665277 original size:2 final size:2
Alignment explanation
Indices: 665260--665291 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
665250 TAACAATTTA
665260 AT AT A- AT AT AT A- 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
665292 CAAACACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:671644 original size:2 final size:2
Alignment explanation
Indices: 671639--671670 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
671629 CTCTCTTTAT
671639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
671671 CACACATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:673152 original size:179 final size:180
Alignment explanation
Indices: 672851--673214 Score: 712
Period size: 179 Copynumber: 2.0 Consensus size: 180
672841 TGATTTATAA
672851 AACATATATTAAATCATTAATAAAACATATAGAAAAATTTAGATAGGTTCTAAAAGTTTCAAGTG
1 AACATATATTAAATCATTAATAAAACATATAGAAAAATTTAGATAGGTTCTAAAAGTTTCAAGTG
672916 TAAATTTTTTACAATTATAACAATTTCTTACAATGATTTATAAAAGAATAAAAGGAAAAAGATGA
66 TAAATTTTTTACAATTATAACAATTTCTTACAATGATTTATAAAAGAATAAAAGGAAAAAGATGA
672981 TATCTTATATAAAAATCAATCTTATAATGAAAGGATTAAATACCCTTTTT
131 TATCTTATATAAAAATCAATCTTATAATGAAAGGATTAAATACCCTTTTT
673031 AACATATATTAAATCATTAATAAAACATATAGAAAAATTTAGATAGGTTCTAAAAGTTTC-AGTG
1 AACATATATTAAATCATTAATAAAACATATAGAAAAATTTAGATAGGTTCTAAAAGTTTCAAGTG
673095 TAAATTTTTTACAATTATAACAATTTCTTACAATGATTTATAAAAGAATAAAAGGAAAAAGATGA
66 TAAATTTTTTACAATTATAACAATTTCTTACAATGATTTATAAAAGAATAAAAGGAAAAAGATGA
673160 TATCTTATATAAAAATCAATCTTATAATGAAAGGATTAAATACCCTTTTT
131 TATCTTATATAAAAATCAATCTTATAATGAAAGGATTAAATACCCTTTTT
*
673210 TACAT
1 AACAT
673215 GAACTATATT
Statistics
Matches: 183, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
179 123 0.67
180 60 0.33
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (180 bp):
AACATATATTAAATCATTAATAAAACATATAGAAAAATTTAGATAGGTTCTAAAAGTTTCAAGTG
TAAATTTTTTACAATTATAACAATTTCTTACAATGATTTATAAAAGAATAAAAGGAAAAAGATGA
TATCTTATATAAAAATCAATCTTATAATGAAAGGATTAAATACCCTTTTT
Found at i:673541 original size:53 final size:54
Alignment explanation
Indices: 673442--673548 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
673432 AATTAAGATG
673442 AGGCTTATTTGTTAGCATGTTAATCTTTCCTACTTTGGACTATCAGATTGAATT
1 AGGCTTATTTGTTAGCATGTTAATCTTTCCTACTTTGGACTATCAGATTGAATT
673496 AGGCTTATTTGTTAGCATGTTAA-CTTTCCTACTTTGGACTATCAGATTGAATT
1 AGGCTTATTTGTTAGCATGTTAATCTTTCCTACTTTGGACTATCAGATTGAATT
673549 TGAATACATG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 30 0.57
54 23 0.43
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (54 bp):
AGGCTTATTTGTTAGCATGTTAATCTTTCCTACTTTGGACTATCAGATTGAATT
Found at i:674172 original size:44 final size:44
Alignment explanation
Indices: 674109--674193 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
674099 GGTCATAGAA
*
674109 ACATTAACAACCGCTAGTTAATTGACATGATATGTTAGTAAGAG
1 ACATTAACAACCACTAGTTAATTGACATGATATGTTAGTAAGAG
* * *
674153 ACATTAACAGCCATTAGTTAATTGACGTGATATGTTAGTAA
1 ACATTAACAACCACTAGTTAATTGACATGATATGTTAGTAA
674194 AAACATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (44 bp):
ACATTAACAACCACTAGTTAATTGACATGATATGTTAGTAAGAG
Found at i:675897 original size:60 final size:60
Alignment explanation
Indices: 675774--675920 Score: 158
Period size: 60 Copynumber: 2.5 Consensus size: 60
675764 AACATAGTGA
* *
675774 ATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGATGGACTCAACAAAGTAACACTCT
1 ATAGTCAGGAGACAATTTTGTAACTTTTAATAGTCGATGGACTCAACAAAGTAACACTCT
* * * * *
675834 ATAGTC-GGAGGACAATTTTGTAACTTTTAATAGTTGA-GTGACTTAATAAAGTGATA-TCTT
1 ATAGTCAGGA-GACAATTTTGTAACTTTTAATAGTCGATG-GACTCAACAAAGTAACACTC-T
*
675894 ATAGTCAGGAGACCATTTATGT-ACTTT
1 ATAGTCAGGAGACAATTT-TGTAACTTT
675921 ACCCAATATT
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
59 5 0.07
60 63 0.85
61 6 0.08
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (60 bp):
ATAGTCAGGAGACAATTTTGTAACTTTTAATAGTCGATGGACTCAACAAAGTAACACTCT
Found at i:681199 original size:23 final size:21
Alignment explanation
Indices: 681165--681209 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
681155 ACTGGACGAG
681165 TTTTTATTATTCGAAATATATAA
1 TTTTTATTATTC--AATATATAA
681188 TTTTT-TTAATTCAATATATAA
1 TTTTTATT-ATTCAATATATAA
681209 T
1 T
681210 ACGGATAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTTATTATTCAATATATAA
Found at i:694359 original size:23 final size:22
Alignment explanation
Indices: 694333--694405 Score: 53
Period size: 23 Copynumber: 3.3 Consensus size: 22
694323 CTAGGTATCA
* *
694333 ATACCCCCTTTGTATTGGTACCG
1 ATACCCCC-TTGAATGGGTACCG
**
694356 ATACTATCCTTGAATGGGTACCG
1 ATAC-CCCCTTGAATGGGTACCG
694379 ATA-CCCC-T-AATGAGGGTACCG
1 ATACCCCCTTGAAT--GGGTACCG
694400 ATACCC
1 ATACCC
694406 TCCACAGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 13 0.32
22 2 0.05
23 19 0.47
24 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (22 bp):
ATACCCCCTTGAATGGGTACCG
Found at i:703608 original size:18 final size:18
Alignment explanation
Indices: 703587--703624 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
703577 TGGTCAAAGG
703587 TGCTAAAAAAGAAGGTAT
1 TGCTAAAAAAGAAGGTAT
703605 TGCTAAAAAAGAAGGTAT
1 TGCTAAAAAAGAAGGTAT
703623 TG
1 TG
703625 ATTTCAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (18 bp):
TGCTAAAAAAGAAGGTAT
Found at i:708976 original size:123 final size:124
Alignment explanation
Indices: 708809--709172 Score: 534
Period size: 123 Copynumber: 2.9 Consensus size: 124
708799 ATGTCAAAAT
* * * ** * **
708809 TAGTGGCGTTTGTCAATAAAACGTCATTATAGATCCGTACCTTAGTGGCGTTTGTTATAAAAACG
1 TAGTGACGTTTGTCACTAAAACGCCGCTATAGAGCTATACCTTAGTGGCGTTTGTTATAAAAACG
* * *
708874 TCGCAATAGAGGAACCTTAGTGGCGTTTGTTACTAAAACGAAGCAATAGAGGCGATCCG
66 CCGCAATAGAGGAACCTTAGTGGCGTTTGTTACTAAAACGCAGCAATAGAGGCGAACCG
*
708933 TAGTGACGTTTGTCACT-AAATGCCGCTATAGAGCTATACCTTAGTGGCGTTTGTTATAAAAACG
1 TAGTGACGTTTGTCACTAAAACGCCGCTATAGAGCTATACCTTAGTGGCGTTTGTTATAAAAACG
708997 CCGCAATAGAGGAACCTTAGTGGCGTTTGTTACTAAAACGCAGCAATAGAGGCGAACCG
66 CCGCAATAGAGGAACCTTAGTGGCGTTTGTTACTAAAACGCAGCAATAGAGGCGAACCG
** *
709056 TAGTGACGTTTGTCGTTAAAACGCCGCTATAGAGCTATACCTTAGAGGCGTTTGTTATAAAAACG
1 TAGTGACGTTTGTCACTAAAACGCCGCTATAGAGCTATACCTTAGTGGCGTTTGTTATAAAAACG
* *
709121 CCGCAATAGAGGCATACCTTAGTAGG-GTTTGTTATTAAAACGCCGCAATAGA
66 CCGCAATAGAGG-A-ACCTTAGT-GGCGTTTGTTACTAAAACGCAGCAATAGA
709173 TCCGTACCTT
Statistics
Matches: 218, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
123 111 0.51
124 72 0.33
125 1 0.00
126 32 0.15
127 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (124 bp):
TAGTGACGTTTGTCACTAAAACGCCGCTATAGAGCTATACCTTAGTGGCGTTTGTTATAAAAACG
CCGCAATAGAGGAACCTTAGTGGCGTTTGTTACTAAAACGCAGCAATAGAGGCGAACCG
Found at i:709204 original size:42 final size:42
Alignment explanation
Indices: 708808--709248 Score: 365
Period size: 42 Copynumber: 10.6 Consensus size: 42
708798 AATGTCAAAA
* * * *** *
708808 TTAGTGGCGTTTGTCAATAAAACGTCATTATAGATCCGTACC
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
* * *
708850 TTAGTGGCGTTTGTTATAAAAACGTCGCAATAGAG--GAACC
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
* ** *
708890 TTAGTGGCGTTTGTTACTAAAACGAAGCAATAGAGGCG-ATCC
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTA-CC
* * * * * * **
708932 GTAGTGACGTTTGTCACT-AAATGCCGCTATAGAGCTATACC
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
* *
708973 TTAGTGGCGTTTGTTATAAAAACGCCGCAATAGAG--GAACC
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
* * * *
709013 TTAGTGGCGTTTGTTACTAAAACGCAGCAATAGAGGCGAACC
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
* * ** * **
709055 GTAGTGACGTTTGTCGTTAAAACGCCGCTATAGAGCTATACC
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
* * * *
709097 TTAGAGGCGTTTGTTATAAAAACGCCGCAATAGAGGCATACC
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
*
709139 TTAGTAGG-GTTTGTTATTAAAACGCCGCAATAGATCCGTACC
1 TTAGT-GGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
* * * * * ** * *
709181 TTAGTGGCGATTGTTGTTGAAACGCCACAGTAGAGGTGCACG
1 TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
*
709223 TTAGTGGCGTTTGTTATTACAACGCC
1 TTAGTGGCGTTTGTTATTAAAACGCC
709249 TGTTGAAAAG
Statistics
Matches: 317, Mismatches: 73, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
40 70 0.22
41 30 0.09
42 215 0.68
43 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
TTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGCCGTACC
Found at i:714470 original size:21 final size:21
Alignment explanation
Indices: 714428--714473 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
714418 TCGGCACGCT
* *
714428 AGTCACCACCGTCGCGCCGCC
1 AGTCACCACCGTCACACCGCC
**
714449 AGTCACCACCGTCACATTGCC
1 AGTCACCACCGTCACACCGCC
714470 AGTC
1 AGTC
714474 GCTCCTCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.46, G:0.20, T:0.15
Consensus pattern (21 bp):
AGTCACCACCGTCACACCGCC
Found at i:717539 original size:10 final size:10
Alignment explanation
Indices: 717524--717586 Score: 56
Period size: 10 Copynumber: 6.0 Consensus size: 10
717514 CTGAAGCGAG
*
717524 AGAGAGAAGT
1 AGAGAGAAGC
*
717534 AGAGAGTAGC
1 AGAGAGAAGC
717544 AGCGAGAGAAGC
1 A--GAGAGAAGC
717556 AGAGAG-AGC
1 AGAGAGAAGC
*
717565 AGCAATAGAAGC
1 AG--AGAGAAGC
717577 AGAGAGAAGC
1 AGAGAGAAGC
717587 TACATTTCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 5 0.12
10 21 0.49
11 3 0.07
12 14 0.33
ACGTcount: A:0.46, C:0.11, G:0.38, T:0.05
Consensus pattern (10 bp):
AGAGAGAAGC
Found at i:717567 original size:21 final size:21
Alignment explanation
Indices: 717525--717583 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
717515 TGAAGCGAGA
*
717525 GAGAGAAGTAGAGAGTAGCAGC
1 GAGAGAAGCAGAGAG-AGCAGC
717547 GAGAGAAGCAGAGAGAGCAGC
1 GAGAGAAGCAGAGAGAGCAGC
* *
717568 AATAGAAGCAGAGAGA
1 GAGAGAAGCAGAGAGA
717584 AGCTACATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.46, C:0.10, G:0.39, T:0.05
Consensus pattern (21 bp):
GAGAGAAGCAGAGAGAGCAGC
Found at i:718000 original size:43 final size:42
Alignment explanation
Indices: 717886--718002 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 42
717876 TATTTTTAGG
* * **
717886 TAAAAATGCCGCTAAATGACCAACCTATTGCGACGTTTGTGC
1 TAAAAATGCCGCTAAATAACAAACCCGTTGCGACGTTTGTGC
** * * **
717928 CCAAAATGCCACTAAATATCAAATACGTTGC-AGCGTTTGTGAC
1 TAAAAATGCCGCTAAATAACAAACCCGTTGCGA-CGTTTGTG-C
*
717971 TAAAAATGCCGCTAAATAACGAACCCGTTGCG
1 TAAAAATGCCGCTAAATAACAAACCCGTTGCG
718003 GGAATGCCTA
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
41 1 0.02
42 29 0.53
43 25 0.45
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
TAAAAATGCCGCTAAATAACAAACCCGTTGCGACGTTTGTGC
Found at i:718963 original size:12 final size:12
Alignment explanation
Indices: 718941--718969 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
718931 AGAAAATATC
718941 TAAAA-TTACAA
1 TAAAATTTACAA
718952 TAAAATTTACAA
1 TAAAATTTACAA
718964 TAAAAT
1 TAAAAT
718970 CATAAGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTTACAA
Found at i:723318 original size:167 final size:168
Alignment explanation
Indices: 723043--723377 Score: 647
Period size: 167 Copynumber: 2.0 Consensus size: 168
723033 CATCAGCAAA
723043 TTGAATAATCGCCTCATCAAGTGAACTTTGTTTGAGCTGATGACTTCTCATACATACTGGAGAGA
1 TTGAATAATCGCCTCATCAAGTGAACTTTGTTTGAGCTGATGACTTCTCATACATACTGGAGAGA
723108 GCCGCCATAAGATCTGCCGTGGTCTTTTCCTTTTCTATGTT-AAAGCAACATTGCGGGATAACGT
66 GCCGCCATAAGATCTGCCGTGGTCTTTTCCTTTTCTATGTTAAAAGCAACATTGCGGGATAACGT
723172 CAGTC-GATAACTCCGAGGGCTTGTCTGTCGAGAAGAG
131 CAGTCGGATAACTCCGAGGGCTTGTCTGTCGAGAAGAG
723209 TTGAATAATCGCCTCATCAAGTGAACTTTGTTTGAGGCTGATGACTTCTCATACATACTGGAGAG
1 TTGAATAATCGCCTCATCAAGTGAACTTTGTTTGA-GCTGATGACTTCTCATACATACTGGAGAG
723274 AGCCGCCATAAGATCTGCCGTGGTCTTTTCCTTTTCTATGTTAAAAGCAACATTGCGGGATAACG
65 AGCCGCCATAAGATCTGCCGTGGTCTTTTCCTTTTCTATGTTAAAAGCAACATTGCGGGATAACG
723339 TCAGTCGGATAACTCCGAGGGCTTGTCTGTCGAGAAGAG
130 TCAGTCGGATAACTCCGAGGGCTTGTCTGTCGAGAAGAG
723378 CCCAATCTTC
Statistics
Matches: 166, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
166 35 0.21
167 71 0.43
168 28 0.17
169 32 0.19
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (168 bp):
TTGAATAATCGCCTCATCAAGTGAACTTTGTTTGAGCTGATGACTTCTCATACATACTGGAGAGA
GCCGCCATAAGATCTGCCGTGGTCTTTTCCTTTTCTATGTTAAAAGCAACATTGCGGGATAACGT
CAGTCGGATAACTCCGAGGGCTTGTCTGTCGAGAAGAG
Found at i:724116 original size:40 final size:40
Alignment explanation
Indices: 724061--724143 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
724051 ATAGGGCACC
724061 AAATTATTGAAAACCCAAACCGACGCCCTCAATTTCTGAA
1 AAATTATTGAAAACCCAAACCGACGCCCTCAATTTCTGAA
724101 AAATTATTGAAAACCCAAACCGACGCCCTCAATTTCTGAA
1 AAATTATTGAAAACCCAAACCGACGCCCTCAATTTCTGAA
724141 AAA
1 AAA
724144 ATAAGCCCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.22
Consensus pattern (40 bp):
AAATTATTGAAAACCCAAACCGACGCCCTCAATTTCTGAA
Found at i:725519 original size:56 final size:55
Alignment explanation
Indices: 725435--725551 Score: 218
Period size: 56 Copynumber: 2.1 Consensus size: 55
725425 TTCGAAGGAG
725435 GTTGG-CAACCATTGAGTGAACTATTATCCCCCATGCCCACAACCAGAGCTTGCC
1 GTTGGCCAACCATTGAGTGAACTATTATCCCCCATGCCCACAACCAGAGCTTGCC
725489 GTTGGCCAACCATTGAGATGAACTATTATCCCCCATGCCCACAACCAGAGCTTGCC
1 GTTGGCCAACCATTGAG-TGAACTATTATCCCCCATGCCCACAACCAGAGCTTGCC
725545 GTTGGCC
1 GTTGGCC
725552 TTAGTCCTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
54 5 0.08
55 11 0.18
56 45 0.74
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (55 bp):
GTTGGCCAACCATTGAGTGAACTATTATCCCCCATGCCCACAACCAGAGCTTGCC
Found at i:725634 original size:24 final size:24
Alignment explanation
Indices: 725590--725635 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
725580 CACCATTTTG
* *
725590 CTTCAGATTAATGAAACTGGAGGC
1 CTTCAGATCAATGAAAATGGAGGC
725614 CTTCAGATCAA-GAAAGATGGAG
1 CTTCAGATCAATGAAA-ATGGAG
725636 CTTGGATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (24 bp):
CTTCAGATCAATGAAAATGGAGGC
Found at i:725775 original size:2 final size:2
Alignment explanation
Indices: 725768--725796 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
725758 GAATCATAAA
725768 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
725797 GAATAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:733430 original size:24 final size:24
Alignment explanation
Indices: 733399--733449 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
733389 AACTCTAACA
733399 TATTATATAGGGTTAGGATCCATT
1 TATTATATAGGGTTAGGATCCATT
733423 TATTATATAGGGTTAGGATCCATT
1 TATTATATAGGGTTAGGATCCATT
733447 TAT
1 TAT
733450 AGTCTTACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (24 bp):
TATTATATAGGGTTAGGATCCATT
Found at i:734790 original size:15 final size:15
Alignment explanation
Indices: 734770--734829 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
734760 CCGGATGTTA
734770 CGGGTACCCGATAAT
1 CGGGTACCCGATAAT
**
734785 CGGGTACCCGGATTTT
1 CGGGTACCC-GATAAT
* *
734801 GTGGGTACCCGGTAAT
1 -CGGGTACCCGATAAT
734817 CGGGTACCCGATA
1 CGGGTACCCGATA
734830 CCCGGTTTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 20 0.57
16 7 0.20
17 8 0.23
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (15 bp):
CGGGTACCCGATAAT
Found at i:734794 original size:32 final size:32
Alignment explanation
Indices: 734758--734826 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
734748 CCGTGTCCCG
734758 ACCCGGATGTTACGGGTACCCGATAATCGGGT
1 ACCCGGATGTTACGGGTACCCGATAATCGGGT
* ** *
734790 ACCCGGATTTTGTGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGATAATCGGGT
734822 ACCCG
1 ACCCG
734827 ATACCCGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGATAATCGGGT
Found at i:746779 original size:31 final size:31
Alignment explanation
Indices: 746723--746797 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
746713 CTTAGCATAA
746723 ATATTTT-TTTCTT-ATTTGAATTTTAAAAAT
1 ATATTTTATTT-TTAATTTGAATTTTAAAAAT
*
746753 ATATTTTATTTTTAATTTTAATTTTAAAAAT
1 ATATTTTATTTTTAATTTGAATTTTAAAAAT
746784 ATATTTTATTTTTA
1 ATATTTTATTTTTA
746798 TCTTAATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 9 0.21
31 33 0.79
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (31 bp):
ATATTTTATTTTTAATTTGAATTTTAAAAAT
Found at i:746794 original size:18 final size:18
Alignment explanation
Indices: 746742--746795 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
746732 TCTTATTTGA
746742 ATTTTAAAAATATATTTT
1 ATTTTAAAAATATATTTT
746760 ATTTT-----TA-ATTTT
1 ATTTTAAAAATATATTTT
746772 AATTTTAAAAATATATTTT
1 -ATTTTAAAAATATATTTT
746791 ATTTT
1 ATTTT
746796 TATCTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
12 5 0.17
13 7 0.24
18 12 0.41
19 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTAAAAATATATTTT
Found at i:746812 original size:31 final size:31
Alignment explanation
Indices: 746741--746813 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
746731 TTCTTATTTG
* *
746741 AATTTTAAAAATATATTTTATTTTTAATTTT
1 AATTATAAAAATATATTTTATTTTTAATCTT
*
746772 AATTTTAAAAATATATTTTATTTTT-ATCTT
1 AATTATAAAAATATATTTTATTTTTAATCTT
746802 AATATATAAAAA
1 AAT-TATAAAAA
746814 ATTTAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 7 0.18
31 32 0.82
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (31 bp):
AATTATAAAAATATATTTTATTTTTAATCTT
Found at i:754742 original size:3 final size:3
Alignment explanation
Indices: 754736--754766 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
754726 ACATTATTAT
754736 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
754767 TCCCAGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:754755 original size:14 final size:14
Alignment explanation
Indices: 754736--754763 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
754726 ACATTATTAT
754736 TAATAATAATAATA
1 TAATAATAATAATA
754750 TAATAATAATAATA
1 TAATAATAATAATA
754764 ATATCCCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:755331 original size:56 final size:55
Alignment explanation
Indices: 755002--755655 Score: 720
Period size: 54 Copynumber: 12.0 Consensus size: 55
754992 AATCTTCGAT
* * * * * *
755002 AAACGGGTTTGCTCCC-CATTT-TTCAGGAAGTATAGAACTCGGA-CATCTTCTTC
1 AAACGGGTTCGCTCCCTC-TTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGC
* * * * * * *
755055 AAACGGGTTCGCTCCCTCTTTCTCTATGGAGTATGGAACTTGGA-CATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGC
* * *
755109 AAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AA-ACATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATA-ATCTTCTGC
** * * *
755163 TTATGGGTTCGCTCCATCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTGC
1 AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGC
*
755218 AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTTTGC
1 AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGC
* *
755273 AAACGGGTTCGCTCCCTCTTTCTTTCAAGAAGTATAGAACTCGAATAATCTTCTGC
1 AAACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAATAATCTTCTGC
* * *
755329 AAACGGGTTCACTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGT
1 AAACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAATAATCTTCTGC
* *
755385 AAACGGGTTCACTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGC
1 AAACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAATAATCTTCTGC
* * *
755441 AAACGGGTTCTCTCCCTCTTTCTTTCA-GGAGTATGGAACTCGAATAATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAATAATCTTCTGC
** * * * * *
755496 TTACGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCGAA-CATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGC
* * * *
755550 TTAA-GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAA-AATCTTCT-A
1 -AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGC
* * * * *
755603 AAGACGAGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCGAA-CATCTTCT
1 AA-ACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCT
755656 TCTGCTTCAC
Statistics
Matches: 544, Mismatches: 47, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
52 1 0.00
53 20 0.04
54 212 0.39
55 149 0.27
56 162 0.30
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (55 bp):
AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGC
Found at i:755536 original size:27 final size:27
Alignment explanation
Indices: 755506--755590 Score: 63
Period size: 27 Copynumber: 3.1 Consensus size: 27
755496 TTACGGGTTC
755506 ACTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCCCTCTTTCTCTAGGGAGTATGGA
* * *
755533 ACTCGAACATC-TTCTTCTTAAGG-GT-TCG-
1 ACTC---CCTCTTTC-TC-TAGGGAGTATGGA
755561 -CTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCCCTCTTTCTCTAGGGAGTATGGA
755587 ACTC
1 ACTC
755591 GAAAATCTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 20
0.62 0.09 0.29
Matches are distributed among these distances:
23 4 0.10
24 7 0.17
25 5 0.12
27 10 0.24
29 5 0.12
30 7 0.17
31 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (27 bp):
ACTCCCTCTTTCTCTAGGGAGTATGGA
Found at i:755729 original size:36 final size:36
Alignment explanation
Indices: 755658--756136 Score: 242
Period size: 36 Copynumber: 12.9 Consensus size: 36
755648 CATCTTCTTC
* * * *
755658 TGCTTCACTATTTCTTCGGTGAAAGCTTAAGATGGTT
1 TGCTTCACTA-CTCTCCAGTGAAGGCTTAAGATGGTT
* * *
755695 TACTTCACTACTCTCCAGTAAAGGCTTAAAATGGTT
1 TGCTTCACTACTCTCCAGTGAAGGCTTAAGATGGTT
* *
755731 TGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGAT
1 TGCTTCACTACTCTCCAGTGAAGGCTTAAGATGGTT
* * *
755767 TGCTTCACTACTCT-CAGGTGAAGGCTTATGATAGAT
1 TGCTTCACTACTCTCCA-GTGAAGGCTTAAGATGGTT
** *
755803 CACTTCACTACTCTTCAGTGAAGGCTTAAGATGGATT
1 TGCTTCACTACTCTCCAGTGAAGGCTTAAGATGG-TT
755840 TGCTTCACTA--CT----TGAAGGCTTAAGATGGATT
1 TGCTTCACTACTCTCCAGTGAAGGCTTAAGATGG-TT
* * **
755871 TGCCTT-ACTACTTTTCAGTGAAGGCTTAAGATGGCC
1 TG-CTTCACTACTCTCCAGTGAAGGCTTAAGATGGTT
* **** * * *
755907 CGGAGGACTTAATCAT-CATTGTCGGAAGGCTTACTGATGAATT
1 TGCTTCAC-TACTC-TCCA--GT--GAAGGCTTA-AGATG-GTT
* * *
755950 TGCTTCACTACTCTTCAATGAAGGCTTAAGAT-TTAT
1 TGCTTCACTACTCTCCAGTGAAGGCTTAAGATGGT-T
* * **
755986 ATGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCC
1 -TGCTTCACTACTCTCCAGTGAAGGCTTAAGATGGTT
* **** * * * *
756023 CGGAGAACTTAATCAT-CATTTTCGGAAGGCTTACTGATGAATT
1 TGCTTCAC-TACTC-TCCA--GT--GAAGGCTTA-AGATG-GTT
* *
756066 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
1 TGCTTCACTACTCTCCAGTGAAGGCTTAAGA-TGGTT
**
756103 TGCTTCACTACTCTTTAGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTCCAGTGAAGGCTTAAGATGG
756137 CCCGGAGGAC
Statistics
Matches: 338, Mismatches: 71, Indels: 67
0.71 0.15 0.14
Matches are distributed among these distances:
31 25 0.07
32 3 0.01
33 1 0.00
35 4 0.01
36 118 0.35
37 114 0.34
38 22 0.07
39 3 0.01
40 2 0.01
41 20 0.06
42 20 0.06
43 6 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (36 bp):
TGCTTCACTACTCTCCAGTGAAGGCTTAAGATGGTT
Found at i:755776 original size:72 final size:70
Alignment explanation
Indices: 755658--756136 Score: 275
Period size: 72 Copynumber: 6.5 Consensus size: 70
755648 CATCTTCTTC
* * * * *
755658 TGCTTCACTATTTCTTCGGTGAAAGCTTAAGATGGTTTACTTCACTACTCTCCAGTAAAGGCTTA
1 TGCTTCACTA-CTCTTCAGTGAAGGCTTAAGATGGATTGCTTCACTACTCT-CAGT-AAGGCTTA
*
755723 AAATGGTT
63 AGATGGTT
* * *
755731 TGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTCAGGTGAAGGCTTAT
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTGCTTCACTACTCTCA-GT-AAGGCTTAA
* *
755796 GATAGAT
64 GATGGTT
**
755803 CACTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTCACTACT-T--G-AAGGCTTAAG
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTCAGTAAGGCTTAAG
755864 ATGGATT
65 ATGG-TT
* *** **** *
755871 TGCCTT-ACTACTTTTCAGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATTGTCGGAAG
1 TG-CTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTGCTTCAC-TACTC-TCA--GT---AAG
* *
755935 GCTTACTGATGAATT
58 GCTTA-AGATG-GTT
* ** *
755950 TGCTTCACTACTCTTCAATGAAGGCTTAAGATTTATATGCTTCACTACTCTTCGGTGAAGGCTTA
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGAT-TGCTTCACTACTC-TCAGT-AAGGCTTA
**
756015 AGATGGCC
63 AGATGGTT
* **** * * * * *
756023 CGGAGAACTTAATCATCATTTTCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAGTGAA
1 TGCTTCAC-TACTCTTCA--GT--GAAGGCTTA-AGATGGA-TTGCTTCACTACTC-TCAGT-AA
*
756088 GGCTTAAGATTGATT
57 GGCTTAAGA-TGGTT
*
756103 TGCTTCACTACTCTTTAGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATGG
756137 CCCGGAGGAC
Statistics
Matches: 305, Mismatches: 74, Indels: 53
0.71 0.17 0.12
Matches are distributed among these distances:
67 15 0.05
68 31 0.10
69 4 0.01
70 1 0.00
71 2 0.01
72 81 0.27
73 26 0.09
74 16 0.05
75 18 0.06
76 1 0.00
77 3 0.01
78 20 0.07
79 78 0.26
80 9 0.03
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (70 bp):
TGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTGCTTCACTACTCTCAGTAAGGCTTAAGA
TGGTT
Found at i:755856 original size:31 final size:31
Alignment explanation
Indices: 755821--755883 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 31
755811 TACTCTTCAG
755821 TGAAGGCTTAAGATGGATTTG-CTTCACTACT
1 TGAAGGCTTAAGATGGATTTGCCTT-ACTACT
755852 TGAAGGCTTAAGATGGATTTGCCTTACTACT
1 TGAAGGCTTAAGATGGATTTGCCTTACTACT
755883 T
1 T
755884 TTCAGTGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (31 bp):
TGAAGGCTTAAGATGGATTTGCCTTACTACT
Found at i:756056 original size:116 final size:116
Alignment explanation
Indices: 755852--756222 Score: 618
Period size: 116 Copynumber: 3.2 Consensus size: 116
755842 CTTCACTACT
* *
755852 TGAAGGCTTAAGATGGATTTGCCTT-ACTACTTTTCAGTGAAGGCTTAAGATGGCCCGGAGGACT
1 TGAAGGCTTAAGATTGATTTG-CTTCACTACTCTTCAGTGAAGGCTTAAGATGGCCCGGAGGACT
* *
755916 TAATCATCATTGTCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAA
65 TAATCATCATTATCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAG
* * * *
755968 TGAAGGCTTAAGATTTATATGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGAACTT
1 TGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGCCCGGAGGACTT
*
756033 AATCATCATTTTCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAG
66 AATCATCATTATCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAG
*
756084 TGAAGGCTTAAGATTGATTTGCTTCACTACTCTTTAGTGAAGGCTTAAGATGGCCCGGAGGACTT
1 TGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGCCCGGAGGACTT
* *
756149 AATCATCATTATCAGAAGGCTTCCTGATGAATTTGCTTCACTACTCTTCAG
66 AATCATCATTATCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAG
756200 TGAAGGCTTAAGATTGATTTGCT
1 TGAAGGCTTAAGATTGATTTGCT
756223 CCAGTCTCAT
Statistics
Matches: 238, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
115 3 0.01
116 235 0.99
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (116 bp):
TGAAGGCTTAAGATTGATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGCCCGGAGGACTT
AATCATCATTATCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAG
Found at i:756113 original size:37 final size:37
Alignment explanation
Indices: 755658--756134 Score: 270
Period size: 37 Copynumber: 12.9 Consensus size: 37
755648 CATCTTCTTC
* * * *
755658 TGCTTCACTATTTCTTCGGTGAAAGCTTAAGA-TGGTT
1 TGCTTCACTA-CTCTTCAGTGAAGGCTTAAGATTGATT
* * * * *
755695 TACTTCACTACTCTCCAGTAAAGGCTTAA-AATGGTT
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
* * *
755731 TGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGA-T
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
* *
755767 TGCTTCACTACTC-TCAGGTGAAGGCTTATGATAGA-T
1 TGCTTCACTACTCTTCA-GTGAAGGCTTAAGATTGATT
** *
755803 CACTTCACTACTCTTCAGTGAAGGCTTAAGATGGATT
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
*
755840 TGCTTCACTA--C-T---TGAAGGCTTAAGATGGATT
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
* ***
755871 TGCCTT-ACTACTTTTCAGTGAAGGCTTAAGA-TGGCC
1 TG-CTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
* **** * * *
755907 CGGAGGACTTAATCATCATTGTCGGAAGGCTTACTGA-TGAATT
1 TGCTTCAC-TACTCTTCA--GT--GAAGGCTTA-AGATTG-ATT
* * *
755950 TGCTTCACTACTCTTCAATGAAGGCTTAAGATTTATA
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
* * ***
755987 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGG
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTG--ATT
* * * *
756026 AGAACTT-AATCATCATTTTC-G-GAAGGCTTACTGA-TGAATT
1 TG--CTTCACT-A-C-TCTTCAGTGAAGGCTTA-AGATTG-ATT
756066 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
*
756103 TGCTTCACTACTCTTTAGTGAAGGCTTAAGAT
1 TGCTTCACTACTCTTCAGTGAAGGCTTAAGAT
756135 GGCCCGGAGG
Statistics
Matches: 337, Mismatches: 70, Indels: 66
0.71 0.15 0.14
Matches are distributed among these distances:
31 25 0.07
32 3 0.01
34 2 0.01
35 3 0.01
36 111 0.33
37 114 0.34
38 25 0.07
39 5 0.01
40 4 0.01
41 23 0.07
42 15 0.04
43 7 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (37 bp):
TGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATT
Found at i:757075 original size:16 final size:18
Alignment explanation
Indices: 757048--757082 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
757038 ACCTCCACTG
757048 TCACTACTTCAT-CATTT
1 TCACTACTTCATACATTT
757065 TCACT-CTTCATACATTT
1 TCACTACTTCATACATTT
757082 T
1 T
757083 TATCCCATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTACTTCATACATTT
Found at i:760643 original size:7 final size:6
Alignment explanation
Indices: 760617--760660 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
760607 AAATACGTAC
760617 ATGC-A ATGCAA ATGCAA ATGCCAA ATGCCAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGCAA ATG-CAA ATG-CAA ATGCAA ATGCAA A
760661 AGGTGTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 4 0.11
6 20 0.54
7 13 0.35
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGCAA
Found at i:760643 original size:13 final size:13
Alignment explanation
Indices: 760621--760657 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
760611 ACGTACATGC
760621 AATGCAAATG-CA
1 AATGCAAATGCCA
760633 AATGCCAAATGCCA
1 AATG-CAAATGCCA
760647 AATGCAAATGC
1 AATGCAAATGC
760658 AAAAGGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 13 0.57
14 6 0.26
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.16
Consensus pattern (13 bp):
AATGCAAATGCCA
Found at i:760974 original size:21 final size:21
Alignment explanation
Indices: 760912--760977 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
760902 CTTTATGTCT
*
760912 TTGTGAATGGTCTTCTCGTCT
1 TTGTGAATGGTCTTCTCGTCC
*
760933 TTATGAATGGTCTTCTCGTCC
1 TTGTGAATGGTCTTCTCGTCC
*
760954 TTGTGAATGGCCTTCTCGTCC
1 TTGTGAATGGTCTTCTCGTCC
760975 TTG
1 TTG
760978 GTATGGCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (21 bp):
TTGTGAATGGTCTTCTCGTCC
Found at i:766304 original size:8 final size:8
Alignment explanation
Indices: 766291--766326 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
766281 GGTTCTACTT
766291 CTTCCATC
1 CTTCCATC
766299 CTTCCATC
1 CTTCCATC
766307 CTTCCATC
1 CTTCCATC
766315 CTTCCATC
1 CTTCCATC
766323 CTTC
1 CTTC
766327 GTGTGCTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.11, C:0.50, G:0.00, T:0.39
Consensus pattern (8 bp):
CTTCCATC
Found at i:766704 original size:63 final size:63
Alignment explanation
Indices: 766534--766722 Score: 326
Period size: 63 Copynumber: 3.0 Consensus size: 63
766524 AATCATTTGA
**
766534 TTGCTCATTTGTGCTTTTGACCATGCTGACTCTAATGACACGAATTGTCCGCCAGTTTCTCAGC
1 TTGCTCATTTGTG-TTTTGACCATGCTGACTCTAATGACACGAATTGTCCATCAGTTTCTCAGC
766598 TTGCTCA-TTGTGTTTTGACCATGCTGACTCTAATGACACGAATTGTCCATCAGTTTCTCAGC
1 TTGCTCATTTGTGTTTTGACCATGCTGACTCTAATGACACGAATTGTCCATCAGTTTCTCAGC
* *
766660 TTGCTCATTTGTGTTTTGACCATGCTGATTCTAGTGACACGAATTGTCCATCAGTTTCTCAGC
1 TTGCTCATTTGTGTTTTGACCATGCTGACTCTAATGACACGAATTGTCCATCAGTTTCTCAGC
766723 AGCACATGGT
Statistics
Matches: 120, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
62 55 0.46
63 58 0.48
64 7 0.06
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.38
Consensus pattern (63 bp):
TTGCTCATTTGTGTTTTGACCATGCTGACTCTAATGACACGAATTGTCCATCAGTTTCTCAGC
Found at i:767104 original size:24 final size:24
Alignment explanation
Indices: 767067--767135 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
767057 TACACCAGTT
* *
767067 GAATCGTTATTAGTGAACCGGTCA
1 GAATCGCTACTAGTGAACCGGTCA
767091 GAATCGCTACTAGTGAACCGGTCA
1 GAATCGCTACTAGTGAACCGGTCA
*
767115 GAACCGCTACTAGTGAACCGG
1 GAATCGCTACTAGTGAACCGG
767136 ACCGGCTGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (24 bp):
GAATCGCTACTAGTGAACCGGTCA
Found at i:769921 original size:22 final size:22
Alignment explanation
Indices: 769878--769919 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
769868 TTTTAAATCA
769878 CATTTATTTTTTTAATTAAAAT
1 CATTTATTTTTTTAATTAAAAT
769900 CATTTA-TTTTTTAATTAAAA
1 CATTTATTTTTTTAATTAAAA
769920 ATTAATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
CATTTATTTTTTTAATTAAAAT
Found at i:770133 original size:92 final size:92
Alignment explanation
Indices: 769972--770150 Score: 268
Period size: 92 Copynumber: 1.9 Consensus size: 92
769962 ATCTCACTTT
* * * **
769972 AAGAAAAACTAGTTTCAACAGAAATATAAACCTTACCATCAGGTGCTAGACATTGATAGCCTTTT
1 AAGAAAAAATAGTTTCAACACAAATATAAACCTTACCATCAAGTGCTAGACATTGATAGCCTTCG
*
770037 TGCTGAGCACTATAACCCAAGAACATA
66 TGCTGAGCACTAGAACCCAAGAACATA
* *
770064 AAGAAAAAATCGTTTCAACACAAGTATAAACCTTACCATCAAGTGCTAGACATTGATAGCCTTCG
1 AAGAAAAAATAGTTTCAACACAAATATAAACCTTACCATCAAGTGCTAGACATTGATAGCCTTCG
* *
770129 TGCTGATCACTAGAACTCAAGA
66 TGCTGAGCACTAGAACCCAAGA
770151 GCACGCATGG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 77 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (92 bp):
AAGAAAAAATAGTTTCAACACAAATATAAACCTTACCATCAAGTGCTAGACATTGATAGCCTTCG
TGCTGAGCACTAGAACCCAAGAACATA
Found at i:771405 original size:130 final size:129
Alignment explanation
Indices: 771170--771409 Score: 306
Period size: 130 Copynumber: 1.9 Consensus size: 129
771160 TTAGAAAAAG
* * *
771170 CTTAATACATTTTCAGGTACCTAAACTATATCTTAAATTGACTTTTGGTGCTTAAAGAATTTTCG
1 CTTAATACATTTTCAGGTACCTAAACTATACCTAAAATTGACTTTTGGTGCCTAAAGAATTTTCG
* * * ** *
771235 TTAAAAATAGGTGTCTAACGTTTTATTTGTTATATTTTTAAGTGTATACTGCTATTTTTTAAGT
66 CTAAAAATAGATGTCTAACATTTTATACGTTATACTTTTAAGTGTATACTGCTATTTTTTAAGT
** *
771299 CTTAATACACTTTT-AGGTGTCTAAACTATACCTCAAAATT-ATTTTTGGTGCCTAAAGAATTTT
1 CTTAATACA-TTTTCAGGTACCTAAACTATACCT-AAAATTGACTTTTGGTGCCTAAAGAA-TTT
*
771362 TCGCTAAAAATATATGTCTAACATTTTCA-ACGTTATACTTTTAAGTGT
63 TCGCTAAAAATAGATGTCTAACATTTT-ATACGTTATACTTTTAAGTGT
771410 TTGGACTGTA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
129 42 0.45
130 51 0.54
131 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (129 bp):
CTTAATACATTTTCAGGTACCTAAACTATACCTAAAATTGACTTTTGGTGCCTAAAGAATTTTCG
CTAAAAATAGATGTCTAACATTTTATACGTTATACTTTTAAGTGTATACTGCTATTTTTTAAGT
Found at i:774481 original size:81 final size:80
Alignment explanation
Indices: 774305--774544 Score: 356
Period size: 81 Copynumber: 3.0 Consensus size: 80
774295 TAAAATTCCT
* ** * *
774305 TTATTCTTTTACTCAACAGTGTTTAACCGTTCATCTAACTGACATAATTGACACTTTCTGTCAAT
1 TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAGTTGACACTTTCTGTCAAT
*
774370 TGCACAATTAGGCTA
66 TGCACAGTTAGGCTA
* *
774385 TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAGTTGACAGCTTTTTGCCAA
1 TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAGTTGACA-CTTTCTGTCAA
774450 TTGCACAGTTAGGCTA
65 TTGCACAGTTAGGCTA
* *
774466 TTATTCTTTTTCTCAACGGTACTTAATCGTTCATCTAACTGGCATAGTTGACACCTTTCTGTC-A
1 TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAGTTGACA-CTTTCTGTCAA
774530 TATGCACAGTTAGGC
65 T-TGCACAGTTAGGC
774545 CTCAAAGATG
Statistics
Matches: 145, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 50 0.34
81 95 0.66
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (80 bp):
TTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAGTTGACACTTTCTGTCAAT
TGCACAGTTAGGCTA
Found at i:774587 original size:68 final size:68
Alignment explanation
Indices: 774486--774882 Score: 598
Period size: 68 Copynumber: 5.9 Consensus size: 68
774476 TCTCAACGGT
* * **
774486 ACTTAATCGTTCATCTAACTGGCATAGTTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
*
774551 GAT
66 GAC
* * *
774554 GCTTAGTCTTTCATCTAACTGACATAAATGACACCTTTCTGTCATATGCACAGTTAAGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
774619 GAC
66 GAC
*
774622 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGACTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
774687 GAC
66 GAC
* * *
774690 ACTTAGTCTTTCATCTAACT-GCATAAATGACATCTTTCTATCATATGCACAATTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
774754 GAC
66 GAC
* * *
774757 ACTTATTCTTTTATCTAACTGGCATAAATGATACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
774822 GAC
66 GAC
* * * * * *
774825 AATTAGTCTTTCATCTAACTGGTATAAATGACACATTTATGTCATATGGACAATTAGG
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGG
774883 TCTTTTGATC
Statistics
Matches: 297, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
67 61 0.21
68 236 0.79
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (68 bp):
ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
GAC
Found at i:774783 original size:135 final size:134
Alignment explanation
Indices: 774486--774882 Score: 596
Period size: 135 Copynumber: 2.9 Consensus size: 134
774476 TCTCAACGGT
* * **
774486 ACTTAATCGTTCATCTAACTGGCATAGTTGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
** * *
774551 GATGCTTAGTCTTTCATCTAACTGACATAAATGACACCTTTCTGTCATATGCACAGTTAAGCCTC
66 GACACTTAGTCTTTCATCTAACTG-CATAAATGACA-CTTTCTGTCATATGCACAATTAGGCCTC
774616 AAAGAC
129 AAAGAC
*
774622 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGACTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
*
774687 GACACTTAGTCTTTCATCTAACTGCATAAATGACATCTTTCTATCATATGCACAATTAGGCCTCA
66 GACACTTAGTCTTTCATCTAACTGCATAAATGACA-CTTTCTGTCATATGCACAATTAGGCCTCA
774752 AAGAC
130 AAGAC
* * *
774757 ACTTATTCTTTTATCTAACTGGCATAAATGATACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
* * * *
774822 GACAATTAGTCTTTCATCTAACTGGTATAAATGACACATTTATGTCATATGGACAATTAGG
66 GACACTTAGTCTTTCATCTAACT-GCATAAATGACAC-TTTCTGTCATATGCACAATTAGG
774883 TCTTTTGATC
Statistics
Matches: 239, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
135 126 0.53
136 113 0.47
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (134 bp):
ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
GACACTTAGTCTTTCATCTAACTGCATAAATGACACTTTCTGTCATATGCACAATTAGGCCTCAA
AGAC
Found at i:775807 original size:20 final size:20
Alignment explanation
Indices: 775782--775837 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 20
775772 GATGTTGTTT
*
775782 GGTATCGATACCCTTA-CTAG
1 GGTATCGATACCCCTATC-AG
775802 GGTATCGATACCACCCTATCAG
1 GGTATCGATA-C-CCCTATCAG
775824 GGTATCGATACCCC
1 GGTATCGATACCCC
775838 CTTCCAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 13 0.41
21 2 0.06
22 16 0.50
23 1 0.03
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCCCTATCAG
Found at i:775847 original size:19 final size:21
Alignment explanation
Indices: 775802--775855 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
775792 CCCTTACTAG
775802 GGTATCGATACCACCCTATCA
1 GGTATCGATACCACCCTATCA
775823 GGGTATCGATACC-CCCT-TCCA
1 -GGTATCGATACCACCCTAT-CA
*
775844 -GTATTGATACCA
1 GGTATCGATACCA
775856 AAATTAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 10 0.34
20 1 0.03
21 6 0.21
22 12 0.41
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (21 bp):
GGTATCGATACCACCCTATCA
Found at i:777633 original size:54 final size:54
Alignment explanation
Indices: 777555--777757 Score: 307
Period size: 54 Copynumber: 3.8 Consensus size: 54
777545 TCACAAACTC
* *
777555 ACTCATTATGAATATCTTAGGTTGAACGCATAGTGCCAATACGGAAATTCATAA
1 ACTCATTATGAATTTCTTAGGTTGAACACATAGTGCCAATACGGAAATTCATAA
* *
777609 ACTCATTATGAATTTCTTAGGTTGAACACATAGTGCCAATATGAAAATTCATAA
1 ACTCATTATGAATTTCTTAGGTTGAACACATAGTGCCAATACGGAAATTCATAA
* * * * * *
777663 ACTTATTATGAATTTCTTAGTTTGCACATATAGTGTCAATACGGAAATTCGTAA
1 ACTCATTATGAATTTCTTAGGTTGAACACATAGTGCCAATACGGAAATTCATAA
*
777717 ACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA
1 ACTCATTATGAATTTCTTAGGTTGAACACATAGTGCCAATA
777758 TGGTAATGCA
Statistics
Matches: 133, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 133 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (54 bp):
ACTCATTATGAATTTCTTAGGTTGAACACATAGTGCCAATACGGAAATTCATAA
Found at i:780978 original size:64 final size:64
Alignment explanation
Indices: 780910--781088 Score: 177
Period size: 64 Copynumber: 2.8 Consensus size: 64
780900 GAATGTGTAC
* ** *
780910 CGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGTAATTC-GTGC
1 CGATGCATAGGTAATGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-TCAGTGC
780972 AT
63 AT
* * * *
780974 CGATGCATAAGTACTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCAGTGCAT
1 CGATGCATAGGTAATGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCAGTGCAT
* ** **
781038 CGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATACTACATCGAAT
1 CGATGCAT-AGGTAATGCATCGATGCATCCCATTAATAATAAAACATCGAAT
781089 ACCTTTTATG
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
63 2 0.02
64 86 0.91
65 7 0.07
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (64 bp):
CGATGCATAGGTAATGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCAGTGCAT
Found at i:781453 original size:12 final size:12
Alignment explanation
Indices: 781436--781471 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
781426 TATATATGTT
781436 TATGTGATATGA
1 TATGTGATATGA
781448 TATGTGATATGA
1 TATGTGATATGA
*
781460 CATGTGATATGA
1 TATGTGATATGA
781472 GAACATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (12 bp):
TATGTGATATGA
Found at i:781522 original size:29 final size:29
Alignment explanation
Indices: 781487--781589 Score: 190
Period size: 29 Copynumber: 3.6 Consensus size: 29
781477 TGATATGAAG
781487 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
781516 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
781545 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
781574 TGACATAAG-TACATGA
1 TGACATGAGCTACATGA
781590 ACATATGAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
28 7 0.10
29 66 0.90
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:787605 original size:64 final size:64
Alignment explanation
Indices: 787537--787690 Score: 152
Period size: 64 Copynumber: 2.4 Consensus size: 64
787527 GCATTGGTAA
** * *
787537 TGCATCGATACA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC-ATGCATCGATGCATAAGT
1 TGCATCGATACATC-CCATTAATAATAAA-ACATCAAATGCAA-TCGATGCATCGATGCATAAGG
787599 AG
63 AG
* * * * *
787601 TGCATCAATGCATCCCATTAATAGTGAAACATCAAATGCAATCGGTGCATCGATGCATAAGGAG
1 TGCATCGATACATCCCATTAATAATAAAACATCAAATGCAATCGATGCATCGATGCATAAGGAG
* **
787665 TGCATCGATGCATCCCAACAATAATA
1 TGCATCGATACATCCCATTAATAATA
787691 CTACATCGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
63 2 0.03
64 66 0.90
65 5 0.07
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (64 bp):
TGCATCGATACATCCCATTAATAATAAAACATCAAATGCAATCGATGCATCGATGCATAAGGAG
Found at i:787697 original size:64 final size:64
Alignment explanation
Indices: 787565--787689 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 64
787555 TAAAATAAAG
* * ** *
787565 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCAATGCATCCCATTAATAGTGAA
1 ACATCAAATGCAATTCATGCATCGATGCATAAGGAGTGCATCAATGCATCCCAACAATAATGAA
* *
787629 ACATCAAATGCAA-TCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAAT
1 ACATCAAATGCAATTC-ATGCATCGATGCATAAGGAGTGCATCAATGCATCCCAACAATAAT
787690 ACTACATCGA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (64 bp):
ACATCAAATGCAATTCATGCATCGATGCATAAGGAGTGCATCAATGCATCCCAACAATAATGAA
Found at i:788067 original size:12 final size:12
Alignment explanation
Indices: 788049--788084 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
788039 TATATATGTT
788049 CATGTGATATGA
1 CATGTGATATGA
*
788061 TATGTGATATGA
1 CATGTGATATGA
788073 CATGTGATATGA
1 CATGTGATATGA
788085 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:788135 original size:29 final size:29
Alignment explanation
Indices: 788100--788173 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
788090 TGATATGAAG
788100 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
788129 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
788158 TGACATAAG-TACATGA
1 TGACATGAGCTACATGA
788174 ACATATGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.16
29 37 0.84
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:788186 original size:28 final size:29
Alignment explanation
Indices: 788100--788186 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
788090 TGATATGAAG
* * *
788100 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATAAGCTACATGAACACAAGAAAAA
* * *
788129 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATAAGCTACATGAACACAAGAAAAA
* *
788158 TGACATAAG-TACATGAACATATGAAAAA
1 TGACATAAGCTACATGAACACAAGAAAAA
788186 T
1 T
788187 AAGAATAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 16 0.30
29 37 0.70
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (29 bp):
TGACATAAGCTACATGAACACAAGAAAAA
Found at i:795213 original size:17 final size:17
Alignment explanation
Indices: 795191--795240 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
795181 AAATTAAATA
795191 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
795208 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
* *
795225 TAATTTAATTAATGAA
1 TAGTTTAATAAATGAA
795241 ATAACTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:798400 original size:132 final size:132
Alignment explanation
Indices: 798154--798495 Score: 477
Period size: 132 Copynumber: 2.6 Consensus size: 132
798144 TGGCGTTACA
* *
798154 TAAACCATCTTTTAACGTCTGTTATGATCGAGACACTTAAAATGGTGGTAACATTAGGCACCTCT
1 TAAACCAT-TTTTAACGTCTGTTATGGTCGAGACACTTAAAATGGTGGTAACGTTAGGCACCTCT
** * * *
798219 ATCAACAAAAAAATTCTTTAGACACCTAAAATTAACTTTAGATATAGTTTGGACACTTATTTTTA
65 ATTGACCAAAAAATCCTTTAAACACCTAAAATTAACTTTAGATATAGTTTGGACACTTATTTTTA
798284 TAT
130 TAT
* * *
798287 TAAACCATTTTTAACATCTATTATGGTCGAGATACTTAAAATGGTGGTAACGTTAGGCACCTCTA
1 TAAACCATTTTTAACGTCTGTTATGGTCGAGACACTTAAAATGGTGGTAACGTTAGGCACCTCTA
** *
798352 TTGACCAAAAAATCCTTTAAACACCTAAAATTAGTTTTAGATATAGTTTGGACATTTATTTTTAT
66 TTGACCAAAAAATCCTTTAAACACCTAAAATTAACTTTAGATATAGTTTGGACACTTATTTTTAT
798417 AT
131 AT
** * * * * * * *
798419 TAAATTATTTTTAATGTTTGTTATGGTCGAGACACTTAAAATGATGGTAATGTCAGACACGTCTA
1 TAAACCATTTTTAACGTCTGTTATGGTCGAGACACTTAAAATGGTGGTAACGTTAGGCACCTCTA
798484 TTGACCAAAAAA
66 TTGACCAAAAAA
798496 CGTTTAGACA
Statistics
Matches: 184, Mismatches: 25, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
132 176 0.96
133 8 0.04
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (132 bp):
TAAACCATTTTTAACGTCTGTTATGGTCGAGACACTTAAAATGGTGGTAACGTTAGGCACCTCTA
TTGACCAAAAAATCCTTTAAACACCTAAAATTAACTTTAGATATAGTTTGGACACTTATTTTTAT
AT
Found at i:798546 original size:132 final size:132
Alignment explanation
Indices: 798154--798552 Score: 383
Period size: 132 Copynumber: 3.0 Consensus size: 132
798144 TGGCGTTACA
* * * * * * *
798154 TAAACCATCTTTTAACGTCTGTTATGATCGAGACACTTAAAATGGTGGTAACATTAGGCACCTCT
1 TAAACCAT-TTTTAACATCTATTATGGTCGAGACACTTAAAATGATGGTAACGTCAGACACCTCT
** * * * * * **
798219 ATCAACAAAAAAATTCTTTAGACACCTAAAATTA-ACTTTAGATATAGTTTGGACACTTATTTTT
65 ATTGACCAAAAAATCCTTTAAACACCCAAAATGAGA-AATAGATATAGTTTGGACACTTATTTTT
798283 ATAT
129 ATAT
* * * *
798287 TAAACCATTTTTAACATCTATTATGGTCGAGATACTTAAAATGGTGGTAACGTTAGGCACCTCTA
1 TAAACCATTTTTAACATCTATTATGGTCGAGACACTTAAAATGATGGTAACGTCAGACACCTCTA
* * *** *
798352 TTGACCAAAAAATCCTTTAAACACCTAAAATTAGTTTTAGATATAGTTTGGACATTTATTTTTAT
66 TTGACCAAAAAATCCTTTAAACACCCAAAATGAGAAATAGATATAGTTTGGACACTTATTTTTAT
798417 AT
131 AT
** ** * * * *
798419 TAAATTATTTTTAATGTTTGTTATGGTCGAGACACTTAAAATGATGGTAATGTCAGACACGTCTA
1 TAAACCATTTTTAACATCTATTATGGTCGAGACACTTAAAATGATGGTAACGTCAGACACCTCTA
* * * *
798484 TTGACCAAAAAA-CGTTTAGACACCCAAATATGA-AAATATATCTAGTTTAGG-CACTTATTTTT
66 TTGACCAAAAAATCCTTTAAACACCCAAA-ATGAGAAATAGATATAGTTT-GGACACTTATTTTT
*
798546 TTAT
129 ATAT
798550 TAA
1 TAA
798553 GTCTTTTAAA
Statistics
Matches: 228, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
131 39 0.17
132 181 0.79
133 8 0.04
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (132 bp):
TAAACCATTTTTAACATCTATTATGGTCGAGACACTTAAAATGATGGTAACGTCAGACACCTCTA
TTGACCAAAAAATCCTTTAAACACCCAAAATGAGAAATAGATATAGTTTGGACACTTATTTTTAT
AT
Found at i:802606 original size:12 final size:12
Alignment explanation
Indices: 802589--802620 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
802579 ATATACAAAT
802589 ACCTAACTCTTC
1 ACCTAACTCTTC
*
802601 ACCTAATTCTTC
1 ACCTAACTCTTC
802613 ACCTAACT
1 ACCTAACT
802621 AAATTGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.34
Consensus pattern (12 bp):
ACCTAACTCTTC
Found at i:804751 original size:36 final size:36
Alignment explanation
Indices: 804711--804782 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
804701 TTAATTTCAA
804711 TTTGAAAATGGGGAATGAAATATGTTAAAAATATAT
1 TTTGAAAATGGGGAATGAAATATGTTAAAAATATAT
*
804747 TTTGAAATTGGGGAATGAAATATGTTAAAAATATAT
1 TTTGAAAATGGGGAATGAAATATGTTAAAAATATAT
804783 ATGTATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (36 bp):
TTTGAAAATGGGGAATGAAATATGTTAAAAATATAT
Found at i:810946 original size:12 final size:12
Alignment explanation
Indices: 810926--811035 Score: 66
Period size: 12 Copynumber: 8.7 Consensus size: 12
810916 AGATCCAATC
*
810926 AGAACAAAAAAG
1 AGAAAAAAAAAG
810938 AGAAAAAAAAAG
1 AGAAAAAAAAAG
*
810950 A-AAAAAAACAG
1 AGAAAAAAAAAG
810961 AGCAAAAAGAAAAG
1 AG-AAAAA-AAAAG
*
810975 A-AAAAAGAAATTAA
1 AGAAAAA-AAA--AG
810989 AGCAAAGAAAAAAG
1 AG-AAA-AAAAAAG
811003 AGCAAAAAAAGAA-
1 AG-AAAAAAA-AAG
*
811016 ACAAAGAAAAAA-
1 AGAAA-AAAAAAG
811028 AGAAAAAA
1 AGAAAAAA
811036 GAAAAAGCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
11 13 0.16
12 30 0.37
13 14 0.17
14 16 0.20
16 6 0.07
17 2 0.02
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:810962 original size:23 final size:24
Alignment explanation
Indices: 810926--811052 Score: 81
Period size: 22 Copynumber: 5.3 Consensus size: 24
810916 AGATCCAATC
*
810926 AGAACAAAAAAGAG-AAAAA-AAA
1 AGAAAAAAAAAGAGCAAAAAGAAA
810948 AGAAAAAAAACAGAGCAAAAAGAAA
1 AGAAAAAAAA-AGAGCAAAAAGAAA
*
810973 AGAAAAAAGAAATTAAAGCAAAGAA-AAA
1 AG-AAAAA-AAA--AGAGCAAA-AAGAAA
*
811001 AGAGCAAAAAAAGA--AACAAAGAAA
1 AGA-AAAAAAAAGAGCAA-AAAGAAA
* *
811025 A-AAAGAAAAA-AG-AAAAAGCAA
1 AGAAAAAAAAAGAGCAAAAAGAAA
811046 AGAAAAA
1 AGAAAAA
811053 GGGACGATAA
Statistics
Matches: 84, Mismatches: 9, Indels: 24
0.72 0.08 0.21
Matches are distributed among these distances:
21 8 0.10
22 21 0.25
23 9 0.11
24 10 0.12
25 7 0.08
26 5 0.06
27 7 0.08
28 15 0.18
29 2 0.02
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.02
Consensus pattern (24 bp):
AGAAAAAAAAAGAGCAAAAAGAAA
Found at i:810968 original size:32 final size:33
Alignment explanation
Indices: 810931--811050 Score: 104
Period size: 32 Copynumber: 3.7 Consensus size: 33
810921 CAATCAGAAC
*
810931 AAAAAAGAGAAAAAAAAAGAAA-AAAAACAGAG
1 AAAAAAGAGAAAAAAAAAGAAATAAAAACAAAG
* * *
810963 CAAAAAGA-AAAGAAAAAAGAAATTAAAGCAAAG
1 AAAAAAGAGAAA-AAAAAAGAAATAAAAACAAAG
* * *
810996 AAAAAAGAG-CAAAAAAAGAAACAAAGAAAAAAAG
1 AAAAAAGAGAAAAAAAAAGAAA-TAA-AAACAAAG
**
811030 AAAAAAGA-AAAAGCAAAGAAA
1 AAAAAAGAGAAAAAAAAAGAAA
811051 AAGGGACGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
31 3 0.04
32 27 0.39
33 16 0.23
34 23 0.33
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (33 bp):
AAAAAAGAGAAAAAAAAAGAAATAAAAACAAAG
Found at i:811020 original size:26 final size:26
Alignment explanation
Indices: 810942--811052 Score: 113
Period size: 26 Copynumber: 4.2 Consensus size: 26
810932 AAAAAGAGAA
*
810942 AAAAAAAGAAAAAA-AACAGAGCAAA-
1 AAAAAAAGAAAAAAGAA-AAAGCAAAG
*
810967 AAGAAAAGAAAAAAGAAATTAAAGCAAAG
1 AAAAAAAGAAAAAAG-AA--AAAGCAAAG
*
810996 AAAAAAGAGCAAAAAA-AGAAA-CAAAG
1 AAAAAA-AG-AAAAAAGAAAAAGCAAAG
811022 AAAAAAAGAAAAAAGAAAAAGCAAAG
1 AAAAAAAGAAAAAAGAAAAAGCAAAG
811048 AAAAA
1 AAAAA
811053 GGGACGATAA
Statistics
Matches: 72, Mismatches: 6, Indels: 15
0.77 0.06 0.16
Matches are distributed among these distances:
24 6 0.08
25 19 0.26
26 21 0.29
27 5 0.07
28 7 0.10
29 6 0.08
30 2 0.03
31 6 0.08
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.02
Consensus pattern (26 bp):
AAAAAAAGAAAAAAGAAAAAGCAAAG
Found at i:811021 original size:8 final size:8
Alignment explanation
Indices: 810931--811041 Score: 68
Period size: 8 Copynumber: 13.5 Consensus size: 8
810921 CAATCAGAAC
810931 AAAAAAGA
1 AAAAAAGA
810939 GAAAAAA-A
1 -AAAAAAGA
*
810947 AAGAAA-A
1 AAAAAAGA
*
810954 AAAACAGA
1 AAAAAAGA
*
810962 GCAAAAAGA
1 -AAAAAAGA
810971 AAAGAAA-A
1 AAA-AAAGA
**
810979 AAGAAATTA
1 AA-AAAAGA
*
810988 AAGCAAAGA
1 AA-AAAAGA
810997 AAAAAGAGCA
1 AAAAA-AG-A
811007 AAAAAAGA
1 AAAAAAGA
*
811015 AACAAAGA
1 AAAAAAGA
811023 AAAAAAG-
1 AAAAAAGA
811030 AAAAAAGA
1 AAAAAAGA
811038 AAAA
1 AAAA
811042 GCAAAGAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
7 17 0.21
8 29 0.36
9 29 0.36
10 6 0.07
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:812085 original size:33 final size:33
Alignment explanation
Indices: 812035--812194 Score: 216
Period size: 33 Copynumber: 4.8 Consensus size: 33
812025 GAAGCAATAG
*
812035 AGGGTATCTTTGAAGATTCAACATCAAAAATTT
1 AGGGCATCTTTGAAGATTCAACATCAAAAATTT
* ** *
812068 AGGGCATCTTTGGAGATTCAACATCAAATGTTG
1 AGGGCATCTTTGAAGATTCAACATCAAAAATTT
*
812101 AGGGCATCTTTGAAGATTCAATATCAAAAATTT
1 AGGGCATCTTTGAAGATTCAACATCAAAAATTT
812134 GAGGGCATCTTTGAAGATTCAACATC--AAATGTT
1 -AGGGCATCTTTGAAGATTCAACATCAAAAAT-TT
* *
812167 GGGGCATCTTTGGAGATTCAACATCAAA
1 AGGGCATCTTTGAAGATTCAACATCAAA
812195 TGTTAGGACA
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
32 27 0.25
33 58 0.53
34 25 0.23
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (33 bp):
AGGGCATCTTTGAAGATTCAACATCAAAAATTT
Found at i:812172 original size:66 final size:66
Alignment explanation
Indices: 812034--812194 Score: 270
Period size: 66 Copynumber: 2.4 Consensus size: 66
812024 TGAAGCAATA
* *
812034 GAGGGTATCTTTGAAGATTCAACATCAAAAATTTAGGGCATCTTTGGAGATTCAACATCAAATGT
1 GAGGGCATCTTTGAAGATTCAACATCAAAAATTTAGGGCATCTTTGAAGATTCAACATCAAATGT
812099 T
66 T
*
812100 GAGGGCATCTTTGAAGATTCAATATCAAAAATTTGAGGGCATCTTTGAAGATTCAACATCAAATG
1 GAGGGCATCTTTGAAGATTCAACATCAAAAATTT-AGGGCATCTTTGAAGATTCAACATCAAATG
812165 TT
65 TT
*
812167 G-GGGCATCTTTGGAGATTCAACATCAAA
1 GAGGGCATCTTTGAAGATTCAACATCAAA
812195 TGTTAGGACA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 57 0.64
67 32 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (66 bp):
GAGGGCATCTTTGAAGATTCAACATCAAAAATTTAGGGCATCTTTGAAGATTCAACATCAAATGT
T
Found at i:812177 original size:32 final size:32
Alignment explanation
Indices: 812040--812217 Score: 218
Period size: 32 Copynumber: 5.4 Consensus size: 32
812030 AATAGAGGGT
*
812040 ATCTTTGAAGATTCAACATCAAAAAT-TTAGGGC
1 ATCTTTGAAGATTCAACATC--AAATGTTGGGGC
*
812073 ATCTTTGGAGATTCAACATCAAATGTTGAGGGC
1 ATCTTTGAAGATTCAACATCAAATGTTG-GGGC
*
812106 ATCTTTGAAGATTCAATATCAAAAAT-TTGAGGGC
1 ATCTTTGAAGATTCAACATC--AAATGTTG-GGGC
812140 ATCTTTGAAGATTCAACATCAAATGTTGGGGC
1 ATCTTTGAAGATTCAACATCAAATGTTGGGGC
* * *
812172 ATCTTTGGAGATTCAACATCAAATGTTAGGAC
1 ATCTTTGAAGATTCAACATCAAATGTTGGGGC
812204 ATCTTT-AGAGATTC
1 ATCTTTGA-AGATTC
812218 GAATATTGGG
Statistics
Matches: 130, Mismatches: 9, Indels: 13
0.86 0.06 0.09
Matches are distributed among these distances:
31 4 0.03
32 51 0.39
33 44 0.34
34 27 0.21
35 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (32 bp):
ATCTTTGAAGATTCAACATCAAATGTTGGGGC
Found at i:812383 original size:34 final size:34
Alignment explanation
Indices: 812328--812456 Score: 206
Period size: 34 Copynumber: 3.8 Consensus size: 34
812318 TGTTTCTCTT
* * *
812328 AAAAAAAATTT-GTCTCACTTGAGATAATTTCTC
1 AAAACAAATTTCGTCTCGCTTGAGACAATTTCTC
812361 AAAACAAATTTCGTCTCGCTTGAGACAATTTCTC
1 AAAACAAATTTCGTCTCGCTTGAGACAATTTCTC
812395 AAAACAAATTTCGTCTCGCTTGAGACAATTTCTC
1 AAAACAAATTTCGTCTCGCTTGAGACAATTTCTC
* *
812429 AAAATAAATTTCATCTCGCTTGAGACAA
1 AAAACAAATTTCGTCTCGCTTGAGACAA
812457 GTTTTATTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
33 10 0.11
34 80 0.89
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (34 bp):
AAAACAAATTTCGTCTCGCTTGAGACAATTTCTC
Found at i:812603 original size:40 final size:40
Alignment explanation
Indices: 812549--813041 Score: 760
Period size: 40 Copynumber: 12.4 Consensus size: 40
812539 ACTCGAAATA
* *
812549 AGAAGATTTAATCTCATTAAAGATTGTTTTTCCTTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
* * *
812589 AGAAGATTTTATCTCACTCAATATTGTTTTTCCTTGAAAT
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
*
812629 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGACAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
*
812669 AGAAGATTTTATCTCATTCAAAATTGTTTTTCCTTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
*
812709 A-AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
* * *
812748 ATAAGATTTTATCTCATTCAAAATTATTTTTCCTTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
* *
812788 AGAAGATTTTATCTCACTCAAGATTGTTTTTCATTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
812828 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
812868 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
*
812908 A-AAGATTTTAACTCATTCAAGATTGTTTTTCCTTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
* *
812947 AAAAGATTTTATCT-AGCTCAAGATTGTTTTTCCTTGAAAC
1 AGAAGATTTTATCTCA-TTCAAGATTGTTTTTCCTTGAAAC
* *
812987 AGAAGAATTTATCTCACTCAAGATTG-TTTTCTCTTGAAAC
1 AGAAGATTTTATCTCATTCAAGATTGTTTTTC-CTTGAAAC
* *
813027 AAAAGATTTTGTCTC
1 AGAAGATTTTATCTC
813042 CTTGAGATAG
Statistics
Matches: 417, Mismatches: 31, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
39 81 0.19
40 335 0.80
41 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (40 bp):
AGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAAC
Found at i:812833 original size:23 final size:23
Alignment explanation
Indices: 812807--812875 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
812797 TATCTCACTC
812807 AAGATTGTTTTTCATTGAAACAG
1 AAGATTGTTTTTCATTGAAACAG
*
812830 AAGATT-TTATCTCATT----C--
1 AAGATTGTT-TTTCATTGAAACAG
*
812847 AAGATTGTTTTTCCTTGAAACAG
1 AAGATTGTTTTTCATTGAAACAG
812870 AAGATT
1 AAGATT
812876 TTATCTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 16
0.65 0.06 0.30
Matches are distributed among these distances:
17 11 0.31
18 2 0.06
19 1 0.03
21 1 0.03
22 2 0.06
23 18 0.51
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (23 bp):
AAGATTGTTTTTCATTGAAACAG
Found at i:812840 original size:159 final size:158
Alignment explanation
Indices: 812551--813041 Score: 761
Period size: 159 Copynumber: 3.1 Consensus size: 158
812541 TCGAAATAAG
* * * *
812551 AAGATTTAATCTCATTAAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTCACTCAATATTGT
1 AAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACA-AAGATTTTATCTCATTCAAAATTGT
* * *
812616 TTTTCCTTGAAATAGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGACACAGAAGATTTTAT
65 TTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTAT
*
812681 CTCATTCAAAATTGTTTTTCCTTGAAACA
130 CTCATTCAAGATTGTTTTTCCTTGAAACA
* *
812710 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACATAAGATTTTATCTCATTCAAAATTAT
1 AAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACA-AAGATTTTATCTCATTCAAAATTGT
*
812775 TTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCATTGAAACAGAAGATTTTAT
65 TTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTAT
812840 CTCATTCAAGATTGTTTTTCCTTGAAACA
130 CTCATTCAAGATTGTTTTTCCTTGAAACA
* *
812869 GAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAAAGATTTTAACTCATTCAAGATTGT
1 -AAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAAAGATTTTATCTCATTCAAAATTGT
* *
812934 TTTTCCTTGAAACAAAAGATTTTATCT-AGCTCAAGATTGTTTTTCCTTGAAACAGAAGAATTTA
65 TTTTCCTTGAAACAGAAGATTTTATCTCA-CTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTA
*
812998 TCTCACTCAAGATTG-TTTTCTCTTGAAACAA
129 TCTCATTCAAGATTGTTTTTC-CTTGAAAC-A
*
813029 AAGATTTTGTCTC
1 AAGATTTTATCTC
813042 CTTGAGATAG
Statistics
Matches: 307, Mismatches: 21, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
158 6 0.02
159 262 0.85
160 39 0.13
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (158 bp):
AAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAAAGATTTTATCTCATTCAAAATTGTT
TTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATC
TCATTCAAGATTGTTTTTCCTTGAAACA
Found at i:812896 original size:199 final size:198
Alignment explanation
Indices: 812551--813041 Score: 797
Period size: 199 Copynumber: 2.5 Consensus size: 198
812541 TCGAAATAAG
* *
812551 AAGATTTAATCTCATT-AAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTCACTCAATATTG
1 AAGATTTTATCTCATTCAAA-ATTGTTTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTG
* *
812615 TTTTTCCTTGAAATAGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGACACAGAAGATTTTA
65 TTTTT-CTTGAAACAGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTA
*
812680 TCTCATTCAAAATTGTTTTTCCTTGAAACAAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGA
129 TCTCATTCAAAATTGTTTTTCCTTGAAACAAAGATTTTAACTCACTCAAGATTGTTTTTCCTTGA
*
812745 AACAT
194 AACAA
*
812750 AAGATTTTATCTCATTCAAAATTATTTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTGT
1 AAGATTTTATCTCATTCAAAATTGTTTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTGT
812815 TTTTCATTGAAACAGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTAT
66 TTTTC-TTGAAACAGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTAT
* *
812880 CTCATTCAAGATTGTTTTTCCTTGAAACAAAGATTTTAACTCATTCAAGATTGTTTTTCCTTGAA
130 CTCATTCAAAATTGTTTTTCCTTGAAACAAAGATTTTAACTCACTCAAGATTGTTTTTCCTTGAA
812945 ACAA
195 ACAA
* * *
812949 AAGATTTTATCT-AGCTCAAGATTGTTTTTCCTTGAAACAGAAGAATTTATCTCACTCAAGATTG
1 AAGATTTTATCTCA-TTCAAAATTGTTTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTG
* *
813013 TTTTCTCTTGAAACAAAAGATTTTGTCTC
65 TTTT-TCTTGAAACAGAAGATTTTATCTC
813042 CTTGAGATAG
Statistics
Matches: 273, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
198 2 0.01
199 266 0.97
200 5 0.02
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (198 bp):
AAGATTTTATCTCATTCAAAATTGTTTTTCCTTGAAACAGAAGATTTTATCTCACTCAAGATTGT
TTTTCTTGAAACAGAAGATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATC
TCATTCAAAATTGTTTTTCCTTGAAACAAAGATTTTAACTCACTCAAGATTGTTTTTCCTTGAAA
CAA
Found at i:813132 original size:15 final size:14
Alignment explanation
Indices: 813108--813160 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
813098 TTTTGTATCC
*
813108 CTTGAGACAATTTCT
1 CTTGAAACAATTT-T
*
813123 CTTGAAACAAGTTT
1 CTTGAAACAATTTT
*
813137 -TTGAGACAGATTTT
1 CTTGAAACA-ATTTT
813151 CTTGAAACAA
1 CTTGAAACAA
813161 AGTTTTGTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 6 0.19
15 18 0.58
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (14 bp):
CTTGAAACAATTTT
Found at i:813153 original size:28 final size:29
Alignment explanation
Indices: 813109--813166 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 29
813099 TTTGTATCCC
813109 TTGAGACAATTTCTCTTGAAAC-AAGTTT
1 TTGAGACAATTTCTCTTGAAACAAAGTTT
813137 TTGAGACAGATTT-TCTTGAAACAAAGTTT
1 TTGAGACA-ATTTCTCTTGAAACAAAGTTT
813166 T
1 T
813167 GTCTCCCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (29 bp):
TTGAGACAATTTCTCTTGAAACAAAGTTT
Found at i:813281 original size:76 final size:72
Alignment explanation
Indices: 813137--813404 Score: 250
Period size: 76 Copynumber: 3.6 Consensus size: 72
813127 AAACAAGTTT
* * * * * * *
813137 TTGAGACAGATTTT-CTTGAAACAAAGTTTTGTCTCCCTTAAGATGGTTTTTCTTAAAATCAACT
1 TTGAGACA-ATTTTCCTTGAAACAAA-ATGTATCTCACTTGAGATGGTTTTTCTTAAAACCTACT
*
813201 TCGTCTCAC
64 TCGTCTTAC
* * *
813210 TTGAGACAACTTTCCCTTGAAACAAAATGTATCTCGCTTGAGATGGTTTTTTTTCATAAAACCTA
1 TTGAGACAA-TTTTCCTTGAAACAAAATGTATCTCACTTGAGATGG---TTTTTCTTAAAACCTA
813275 CTTCGTCTTAC
62 CTTCGTCTTAC
* * * * *
813286 TTGAGATAGTTTTCTTTGAAACAAAGAAATTGAATCTCACTTGAGATGGGTTTTCTTAAAACCTA
1 TTGAGACAATTTTCCTTGAAAC--A-AAA-TGTATCTCACTTGAGATGGTTTTTCTTAAAACCTA
813351 CTTCGTCTTAC
62 CTTCGTCTTAC
* * * *
813362 TGGAGACAATTTTCCTTCGAAATAAAATTTATCTCACTCGAGA
1 TTGAGACAATTTTCCTT-GAAACAAAATGTATCTCACTTGAGA
813405 GAGCTTCTCT
Statistics
Matches: 159, Mismatches: 26, Indels: 20
0.78 0.13 0.10
Matches are distributed among these distances:
72 1 0.01
73 39 0.25
74 14 0.09
75 12 0.08
76 68 0.43
77 5 0.03
78 3 0.02
79 17 0.11
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (72 bp):
TTGAGACAATTTTCCTTGAAACAAAATGTATCTCACTTGAGATGGTTTTTCTTAAAACCTACTTC
GTCTTAC
Found at i:813835 original size:91 final size:91
Alignment explanation
Indices: 813680--813930 Score: 448
Period size: 91 Copynumber: 2.7 Consensus size: 91
813670 TTTCTAATAG
813680 AGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAAAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAAAAGAAGTTCATAATGAGAAGAACTTGTT
813745 CGATCTCGCATCAGTGTTTCCAATGA
66 CGATCTCGCATCAGTGTTTCCAATGA
813771 AGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAAAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAAAAGAAGTTCATAATGAGAAGAACTTGTT
*
813836 CGATCTCGCATCAGTGTTTCCAATGG
66 CGATCTCGCATCAGTGTTTCCAATGA
* * * *
813862 AGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCC-AACGAGAGAAAAGAAGTTCATAATGAGAAGAACTTGT
813927 TCGA
65 TCGA
813931 CTTATCACTC
Statistics
Matches: 154, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 117 0.76
92 37 0.24
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (91 bp):
AGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAAAAGAAGTTCATAATGAGAAGAACTTGTT
CGATCTCGCATCAGTGTTTCCAATGA
Found at i:814014 original size:16 final size:16
Alignment explanation
Indices: 813993--814048 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
813983 TAACATTTCC
813993 AGAAGAGTTCATAATG
1 AGAAGAGTTCATAATG
* *
814009 AGAAGAACTCGTCATAAAG
1 AGAAG-AGT--TCATAATG
*
814028 -GAAAAGTTCATAATG
1 AGAAGAGTTCATAATG
814043 AGAAGA
1 AGAAGA
814049 ACTTGTTCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 7 0.23
16 9 0.30
17 4 0.13
18 3 0.10
19 7 0.23
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (16 bp):
AGAAGAGTTCATAATG
Found at i:814023 original size:19 final size:17
Alignment explanation
Indices: 814000--814052 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
813990 TCCAGAAGAG
814000 TTCATAATGAGAAGAAC
1 TTCATAATGAGAAGAAC
* *
814017 TCGTCATAAAG-GAA-AAG
1 T--TCATAATGAGAAGAAC
814034 TTCATAATGAGAAGAAC
1 TTCATAATGAGAAGAAC
814051 TT
1 TT
814053 GTTCCTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 7 0.25
16 3 0.11
17 8 0.29
18 3 0.11
19 7 0.25
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (17 bp):
TTCATAATGAGAAGAAC
Found at i:814280 original size:240 final size:239
Alignment explanation
Indices: 813852--814457 Score: 1043
Period size: 240 Copynumber: 2.5 Consensus size: 239
813842 CGCATCAGTG
813852 TTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAG
1 TTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAG
* *
813917 AAGAGCTTGTTCGACTTATCACTCGATTCATGGCATTTCGAATCAGTGACGCCTCGTTTGAGGGA
66 AAGAGCTTGTTCGACTTATCACTCGATTCA-CGCATTTCGAATCAGTGACGCCTCGCTTGAGGGA
813982 TTAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCATAAAGGAAAAGTTCATAATGAGAA
130 TTAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCATAAAGGAAAAGTTCATAATGAGAA
*
814047 GAACTTGTTCCTTTCAATTCCATCACAGAATGAGATGGATCAACA
195 GAACTTGTTCCTTTCAATTCCATCACAGAATAAGATGGATCAACA
*
814092 TTTCTAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAG
1 TTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAG
*
814157 GAGAGCTTGTTCGACTTATCACTCGATTCACAGCATTTCGAATCAGTGACGCCTCGCTTGAGGGA
66 AAGAGCTTGTTCGACTTATCACTCGATTCAC-GCATTTCGAATCAGTGACGCCTCGCTTGAGGGA
* * *
814222 TTGACATTTCCATAAGAGTTCATAATGAGAAGAACTCGTCATAAAGGAAAAGTTCATAATGAGGA
130 TTAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCATAAAGGAAAAGTTCATAATGAGAA
*
814287 GAATTTGTTCCTTTCAATTCCATCACAGAATAAGATGGATCAACA
195 GAACTTGTTCCTTTCAATTCCATCACAGAATAAGATGGATCAACA
* *
814332 TTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCC-AACGAGAGAGAAGAAGTTCATAATGAG
1 TTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAG
* * * *
814396 AAGAGCTTGTTCGACCTATCACTCGACTCACGACATTTTGAATCAATGACGCCTCGCTTGAG
66 AAGAGCTTGTTCGACTTATCACTCGATTCACG-CATTTCGAATCAGTGACGCCTCGCTTGAG
814458 AAACCATCAT
Statistics
Matches: 347, Mismatches: 17, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
238 1 0.00
239 80 0.23
240 266 0.77
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (239 bp):
TTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAG
AAGAGCTTGTTCGACTTATCACTCGATTCACGCATTTCGAATCAGTGACGCCTCGCTTGAGGGAT
TAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCATAAAGGAAAAGTTCATAATGAGAAG
AACTTGTTCCTTTCAATTCCATCACAGAATAAGATGGATCAACA
Found at i:814514 original size:43 final size:43
Alignment explanation
Indices: 814451--814755 Score: 341
Period size: 43 Copynumber: 6.8 Consensus size: 43
814441 ATGACGCCTC
*
814451 GCTTG-AGAAACCATCATGATATGTAGGGGTTTCTTGATGAAAA
1 GCTTGAAG-AACCATCGTGATATGTAGGGGTTTCTTGATGAAAA
* * *
814494 GCTTGAAGGACCATCGTGATATGTAGGGGTTTTTTGATGACAA
1 GCTTGAAGAACCATCGTGATATGTAGGGGTTTCTTGATGAAAA
* *
814537 GTTTG-AGAAACCATCGTGATATGTAGGGGTTTCTTGATGACAA
1 GCTTGAAG-AACCATCGTGATATGTAGGGGTTTCTTGATGAAAA
*
814580 GCTTG-AGAAACCATCGTGATTTGTAGGGGTTTCTTGATGAAAA
1 GCTTGAAG-AACCATCGTGATATGTAGGGGTTTCTTGATGAAAA
* *
814623 ACTT-AAGGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAACTTGA
1 GCTTGAA-GAACCATCGTGATATGTAGGGGTTTCTTGATG--AAA----A
814672 TGAATACTTGAAGAACCATCGTGATATGTAGGGGTTTCTTGATGAAAA
1 -G----CTTGAAGAACCATCGTGATATGTAGGGGTTTCTTGATGAAAA
*
814720 GCTT-AAGGAACCATCGTGATATGTAGGGGTTCCTTG
1 GCTTGAA-GAACCATCGTGATATGTAGGGGTTTCTTG
814756 GTGACAATTA
Statistics
Matches: 229, Mismatches: 16, Indels: 34
0.82 0.06 0.12
Matches are distributed among these distances:
42 4 0.02
43 177 0.77
44 3 0.01
45 3 0.01
47 1 0.00
48 1 0.00
49 1 0.00
52 3 0.01
54 34 0.15
55 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (43 bp):
GCTTGAAGAACCATCGTGATATGTAGGGGTTTCTTGATGAAAA
Found at i:814598 original size:86 final size:87
Alignment explanation
Indices: 814451--814762 Score: 376
Period size: 86 Copynumber: 3.5 Consensus size: 87
814441 ATGACGCCTC
* * * * *
814451 GCTTGAGAAACCATCATGATATGTAGGGGTTTCTTGATGAAAAGCTTGA-AGGACCATCGTGATA
1 GCTTAAGAAACCATCGTGATATGTAGGGGTTCCTTGATGACAAGCTTGAGAGAACCATCGTGATA
* *
814515 TGTAGGGGTTTTTTGATGACAA
66 TGTAGGGGTTTCTTGATGAAAA
* * * *
814537 GTTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGACAAGCTTGAGA-AACCATCGTGATT
1 GCTTAAGAAACCATCGTGATATGTAGGGGTTCCTTGATGACAAGCTTGAGAGAACCATCGTGATA
814601 TGTAGGGGTTTCTTGATGAAAA
66 TGTAGGGGTTTCTTGATGAAAA
* * *
814623 ACTTAAGGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAACTTGATGAATACTTGAAGAAC
1 GCTTAAGAAACCATCGTGATATGTAGGGGTTCCTTGATGACAAGC-T--TG---A---G-AGAAC
814688 CATCGTGATATGTAGGGGTTTCTTGATGAAAA
56 CATCGTGATATGTAGGGGTTTCTTGATGAAAA
* *
814720 GCTTAAGGAACCATCGTGATATGTAGGGGTTCCTTGGTGACAA
1 GCTTAAGAAACCATCGTGATATGTAGGGGTTCCTTGATGACAA
814763 TTAAAAAATT
Statistics
Matches: 198, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
86 116 0.59
87 2 0.01
89 2 0.01
92 1 0.01
95 1 0.01
96 1 0.01
97 75 0.38
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (87 bp):
GCTTAAGAAACCATCGTGATATGTAGGGGTTCCTTGATGACAAGCTTGAGAGAACCATCGTGATA
TGTAGGGGTTTCTTGATGAAAA
Found at i:814695 original size:54 final size:55
Alignment explanation
Indices: 814612--814716 Score: 169
Period size: 54 Copynumber: 1.9 Consensus size: 55
814602 GTAGGGGTTT
814612 CTTGATGAAAAACTTAAGGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
1 CTTGATGAAAAACTTAAGGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
* *
814667 CTTGATG-AATACTTGAA-GAACCATCGTGATATGTAGGGGTTTCTTGATGA
1 CTTGATGAAAAACTT-AAGGAACCATCGTGATATGTAGGGGTTCCTTGATGA
814717 AAAGCTTAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
54 38 0.81
55 9 0.19
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (55 bp):
CTTGATGAAAAACTTAAGGAACCATCGTGATATGTAGGGGTTCCTTGATGACAAA
Found at i:814925 original size:90 final size:90
Alignment explanation
Indices: 814772--815083 Score: 495
Period size: 90 Copynumber: 3.5 Consensus size: 90
814762 ATTAAAAAAT
** *
814772 TGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTTGGGCCATCCATAAGACCTTCAATGCAGGA
1 TGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGA
814837 TGTTTTCAAATGAGATCTAAGAAAC
66 TGTTTTCAAATGAGATCTAAGAAAC
* *
814862 TGAGCCTTCTGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGA
1 TGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGA
814927 TGTTTTCAAATGAGATCTAAGAAAC
66 TGTTTTCAAATGAGATCTAAGAAAC
*
814952 TGAGCCTTCGGGGGTTTCTTGATTTTTAAATCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGA
1 TGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGA
* *
815017 TGTTTTCAAATGATATTTTAA-AAAC
66 TGTTTTCAAATGAGA-TCTAAGAAAC
* * *
815042 TAACCCTT-GGGGG-TTCTTGATTTGTAAGTCCTCCGGGCCATC
1 TGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTCCGGGCCATC
815084 AGTAAGTCTT
Statistics
Matches: 209, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
88 27 0.13
89 5 0.02
90 173 0.83
91 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (90 bp):
TGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTCCGGGCCATCCATAAGACCTTCAGTGCAGGA
TGTTTTCAAATGAGATCTAAGAAAC
Found at i:815090 original size:20 final size:21
Alignment explanation
Indices: 815064--815125 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
815054 GTTCTTGATT
815064 TGTAAGTCCTCCGGGCCATCA
1 TGTAAGTCCTCCGGGCCATCA
* * *
815085 -GTAAGTCTTCCGAG-CATGA
1 TGTAAGTCCTCCGGGCCATCA
815104 TGCATAAGTCCTCCGGGCCATC
1 TG--TAAGTCCTCCGGGCCATC
815126 CATAAGACCT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
19 4 0.13
20 13 0.42
22 11 0.35
23 3 0.10
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTAAGTCCTCCGGGCCATCA
Found at i:816450 original size:36 final size:36
Alignment explanation
Indices: 816409--816480 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
816399 TTAATTTCAA
816409 TTTGAAAATGGGGAATGAAATATGTTAAAAATATAT
1 TTTGAAAATGGGGAATGAAATATGTTAAAAATATAT
*
816445 TTTGAAATTGGGGAATGAAATATGTTAAAAATATAT
1 TTTGAAAATGGGGAATGAAATATGTTAAAAATATAT
816481 GTATTTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (36 bp):
TTTGAAAATGGGGAATGAAATATGTTAAAAATATAT
Found at i:821615 original size:12 final size:12
Alignment explanation
Indices: 821589--821631 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
821579 ATATACAAAT
821589 ACCTAACTC-TC
1 ACCTAACTCTTC
821600 ACCTAACTCTTC
1 ACCTAACTCTTC
*
821612 ACCTAATTCTTC
1 ACCTAACTCTTC
821624 ACCTAACT
1 ACCTAACT
821632 AAATTGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.33
Consensus pattern (12 bp):
ACCTAACTCTTC
Found at i:822985 original size:9 final size:9
Alignment explanation
Indices: 822973--823006 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
822963 TAATATTTTG
822973 TATTTAATT
1 TATTTAATT
*
822982 TATTTAA-G
1 TATTTAATT
822990 TATTTAATT
1 TATTTAATT
822999 TATTTAAT
1 TATTTAAT
823007 ATTTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:822992 original size:17 final size:17
Alignment explanation
Indices: 822972--823023 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
822962 TTAATATTTT
822972 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
822989 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
823006 -TATTTTATTTAATTAA
1 GTATTTAATTTATTTAA
823022 GT
1 GT
823024 TTTTTACAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:823028 original size:17 final size:17
Alignment explanation
Indices: 822972--823029 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
822962 TTAATATTTT
*
822972 GTATTTAATTTATTTAA
1 GTATTTTATTTATTTAA
*
822989 GTATTTAATTTATTTAA
1 GTATTTTATTTATTTAA
*
823006 -TATTTTATTTAATTAA
1 GTATTTTATTTATTTAA
*
823022 GTTTTTTA
1 GTATTTTA
823030 CAGATATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 14 0.38
17 23 0.62
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTTATTTATTTAA
Found at i:823912 original size:26 final size:26
Alignment explanation
Indices: 823883--823935 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
823873 TATGTCCCGT
823883 TGTGAAGAACTCATTCTTATTTCCGC
1 TGTGAAGAACTCATTCTTATTTCCGC
823909 TGTGAAGAACTCATTCTTATTTCCGC
1 TGTGAAGAACTCATTCTTATTTCCGC
823935 T
1 T
823936 ACTCTTGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (26 bp):
TGTGAAGAACTCATTCTTATTTCCGC
Found at i:825256 original size:25 final size:25
Alignment explanation
Indices: 825216--825285 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
825206 AGATTTTGTT
* * *
825216 TTTTTATTATATTTGTATT-TAGTAC
1 TTTTTATTGTAGTTGT-TTATAGGAC
*
825241 TTTTTATTGTAGTTGTTTATTGGAC
1 TTTTTATTGTAGTTGTTTATAGGAC
* *
825266 TTTTTATTGTAATTTTTTAT
1 TTTTTATTGTAGTTGTTTAT
825286 TATTTATCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (25 bp):
TTTTTATTGTAGTTGTTTATAGGAC
Found at i:825286 original size:25 final size:25
Alignment explanation
Indices: 825239--825286 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
825229 TGTATTTAGT
*
825239 ACTTTTTATTGTAGTTGTTTATTGG
1 ACTTTTTATTGTAATTGTTTATTGG
*
825264 ACTTTTTATTGTAATTTTTTATT
1 ACTTTTTATTGTAATTGTTTATT
825287 ATTTATCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.65
Consensus pattern (25 bp):
ACTTTTTATTGTAATTGTTTATTGG
Found at i:832473 original size:20 final size:20
Alignment explanation
Indices: 832448--832486 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
832438 ACGAGAAAGT
832448 AAGTGAATAAGGGCTTAGTC
1 AAGTGAATAAGGGCTTAGTC
832468 AAGTGAATAAGGGCTTAGT
1 AAGTGAATAAGGGCTTAGT
832487 TACCATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.26
Consensus pattern (20 bp):
AAGTGAATAAGGGCTTAGTC
Found at i:840442 original size:3 final size:3
Alignment explanation
Indices: 840434--840485 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
840424 CTTGGGTTTT
* * * *
840434 ATA ATA ATA ATA ATA TTA ATA ATA AAA ATA ATA ATA ATA GTA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
840482 ATA A
1 ATA A
840486 AAAACCAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:840971 original size:96 final size:96
Alignment explanation
Indices: 840860--841058 Score: 290
Period size: 96 Copynumber: 2.1 Consensus size: 96
840850 CATTATGAAC
* * *
840860 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCCTGGAAAAGCTGATCCATCG
* * * * *
840925 AGTGATGAATTCGAGCAAAAAGTTGAACAAG
66 AATGATAAATTCAAACAAAAAGTTGAACAAA
* * *
840956 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCCTGGCAATGCTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCCTGGAAAAGCTGATCCATCG
*
841021 AATGATAAATTCAAACGAAAAGTTGAACAAA
66 AATGATAAATTCAAACAAAAAGTTGAACAAA
841052 TTCTTCT
1 TTCTTCT
841059 CATTATGAAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (96 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCCTGGAAAAGCTGATCCATCG
AATGATAAATTCAAACAAAAAGTTGAACAAA
Found at i:841073 original size:113 final size:113
Alignment explanation
Indices: 840956--841449 Score: 871
Period size: 113 Copynumber: 4.4 Consensus size: 113
840946 GTTGAACAAG
* *
840956 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCCTGGCAATGCTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCG
* * *
841021 AATGATAAATTCAAACGAAAAGTTGAACAAATTCTTCTCATTATGAAC
66 AATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
* *
841069 TTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCG
*
841134 AATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCTTTATGAAC
66 AATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
*
841182 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCG
*
841247 AATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTTATTATGAAC
66 AATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
*
841295 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCG
*
841360 AATGATGAATTCAAGCGAAAAGTTAAACAAGTTCTTCTCATTATGAAC
66 AATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
*
841408 TTCTTCTTCCTTCTTCAGTTGAGTTCTTCTCATTATGAACTC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
841450 TTCCAGAAAT
Statistics
Matches: 365, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 365 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCG
AATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAAC
Done.