Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008225.1 Hibiscus syriacus cultivar Beakdansim tig00110858_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: 1890193
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:741971 original size:3 final size:3
Alignment explanation
Indices: 741963--742028 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
741953 ATTTATTTGT
* *
741963 TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA -TA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
742008 -TA TATA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA
742029 AAAAAAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.07
3 45 0.82
4 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:742053 original size:14 final size:15
Alignment explanation
Indices: 742034--742069 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
742024 TATTAAAAAA
742034 AATAATAAATA-AAT
1 AATAATAAATATAAT
742048 AATAAT-AATATAAT
1 AATAATAAATATAAT
742062 AATAATAA
1 AATAATAA
742070 CTACAAACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 15 0.75
15 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAAATATAAT
Found at i:742064 original size:11 final size:11
Alignment explanation
Indices: 742035--742068 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
742025 ATTAAAAAAA
742035 ATAATAAATAA-
1 ATAAT-AATAAT
742046 ATAATAATAAT
1 ATAATAATAAT
742057 ATAATAATAAT
1 ATAATAATAAT
742068 A
1 A
742069 ACTACAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:744072 original size:13 final size:15
Alignment explanation
Indices: 744040--744077 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
744030 TTAATATTTC
744040 ATTTTATTTGCAAAT
1 ATTTTATTTGCAAAT
*
744055 ATTTTATTT-C-ATT
1 ATTTTATTTGCAAAT
744068 ATTTTATTTG
1 ATTTTATTTG
744078 TTCTGTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (15 bp):
ATTTTATTTGCAAAT
Found at i:751197 original size:83 final size:83
Alignment explanation
Indices: 751058--751600 Score: 934
Period size: 83 Copynumber: 6.6 Consensus size: 83
751048 GAATAAATGC
751058 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGT-TGATCTGGTTTGGTAAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA-TCTGATCTGGTTTGGTAAAACCAA
751122 TCATTGAATTTGGAAGAAT
65 TCATTGAATTTGGAAGAAT
*
751141 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
751206 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
*
751224 AATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
751289 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
*
751307 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTTATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
751372 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
751390 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
**
751455 CATTGAATTT-G-AGAGG
66 CATTGAATTTGGAAGAAT
* * *
751471 AATGTGTTCATAACATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
**
751536 CATTGAATTT-G-AGAGG
66 CATTGAATTTGGAAGAAT
* *
751552 AATGTGTTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
751601 ATTCGGTATG
Statistics
Matches: 447, Mismatches: 12, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
81 129 0.29
82 1 0.00
83 317 0.71
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGGAAGAAT
Found at i:754293 original size:22 final size:22
Alignment explanation
Indices: 754263--754341 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
754253 ACATCTACAT
*
754263 TCTTCAAAGATGATAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
*
754285 TCTTTAAAGATGATAGATTCCC
1 TCTTTAAAGATGATAGATTCTC
* *
754307 TTTTTAAAGATGACAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
754329 T-TTTCAAAGATGA
1 TCTTT-AAAGATGA
754342 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 3 0.06
22 48 0.94
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTTAAAGATGATAGATTCTC
Found at i:755104 original size:110 final size:110
Alignment explanation
Indices: 754780--755463 Score: 1066
Period size: 110 Copynumber: 6.2 Consensus size: 110
754770 TACCAGTTCG
* * * * *
754780 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAAAAATTCATAATGAGAATAATTTGTCC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT-A--AGAAGAATTTGTTC
* * * * * ****
754845 AACCTTTTG-TTCAAATCTATCACTTGATGGATTATCTTTTCCAGTTCG
63 AACCTTTTGCCT-GAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
* * *
754893 AGTTCATAATGAGAAAAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTCC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT-A--AGAAGAATTTGTTC
* * *
754958 AACCTTTTG-TTCAAATCTATCACTTGATGGATTAGCTTTGCCAGAGAA
63 AACCTTTTGCCT-GAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
755006 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
755071 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
66 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
*
755116 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAAGAAGAATTTGTTCAAC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
755181 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
66 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
*
755226 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
755291 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
66 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
*
755336 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
755401 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
66 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
*
755446 AGTTCATAATAAGAAGAA
1 AGTTCATAATGAGAAGAA
755464 ATTCATAATG
Statistics
Matches: 549, Mismatches: 21, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
110 401 0.73
111 1 0.00
112 1 0.00
113 146 0.27
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (110 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
Found at i:755470 original size:17 final size:18
Alignment explanation
Indices: 755442--755480 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
755432 GCTTTGCCAG
755442 AGAAAGTTCATAATAAGA
1 AGAAAGTTCATAATAAGA
*
755460 AGAAA-TTCATAATGAGA
1 AGAAAGTTCATAATAAGA
755477 AGAA
1 AGAA
755481 TTTGTTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (18 bp):
AGAAAGTTCATAATAAGA
Found at i:755519 original size:90 final size:87
Alignment explanation
Indices: 755369--755553 Score: 334
Period size: 90 Copynumber: 2.1 Consensus size: 87
755359 CTGAAGAAGG
*
755369 AAGAAGAAGTTCATAAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATTAGC
1 AAGAAGAAATTCATAAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATTAGC
755434 TTTGCCAGAGAAAGTTCATAAT
66 TTTGCCAGAGAAAGTTCATAAT
755456 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
1 AAGAAGAAATTCAT-A--AGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
755521 AGCTTTGCCAGAGAAAGTTCATAAT
63 AGCTTTGCCAGAGAAAGTTCATAAT
755546 AAGAAGAA
1 AAGAAGAA
755554 CTCATCTGAA
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
87 13 0.14
88 1 0.01
90 80 0.85
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (87 bp):
AAGAAGAAATTCATAAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATTAGC
TTTGCCAGAGAAAGTTCATAAT
Found at i:755585 original size:113 final size:113
Alignment explanation
Indices: 755456--755813 Score: 570
Period size: 113 Copynumber: 3.2 Consensus size: 113
755446 AGTTCATAAT
755456 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
1 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
755521 AGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
66 AGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
*
755569 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATCCATCACTTGATGGATT
1 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
*
755634 AGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
66 AGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
* * * *
755682 AAGAAG---TTCATAAT--G-AGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATC
1 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
*
755741 AGCCTTT-CCAGAAAAAGTTCATAATGAA-AAGAACTCATCTGAAGAAGG
66 AG-CTTTGCCAGAGAAAGTTCATAAT-AAGAAGAACTCATCTGAAGAAGG
*
755789 AAGAAGAAGTTCATAATGAGAAGAA
1 AAGAAGAAATTCATAATGAGAAGAA
755814 CTCATCAAGA
Statistics
Matches: 228, Mismatches: 9, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
107 84 0.37
108 6 0.03
110 16 0.07
112 1 0.00
113 121 0.53
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (113 bp):
AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
AGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
Found at i:756084 original size:9 final size:10
Alignment explanation
Indices: 756079--756139 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
756069 CCCATTTTAT
*
756079 TTATTTGTTTA
1 TTATTTATT-A
756090 TTA-TTATTA
1 TTATTTATTA
756099 TTA-TTATTA
1 TTATTTATTA
*
756108 -TATATATTA
1 TTATTTATTA
*
756117 TTATATA-TA
1 TTATTTATTA
756126 TTA-TTATTA
1 TTATTTATTA
756135 TTATT
1 TTATT
756140 AAAGAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
8 4 0.09
9 25 0.58
10 11 0.26
11 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATTTATTA
Found at i:756095 original size:3 final size:3
Alignment explanation
Indices: 756087--756140 Score: 76
Period size: 3 Copynumber: 18.0 Consensus size: 3
756077 ATTTATTTGT
756087 TTA TTA TTA TTA TTA TTA TTA -TA TATA TTA TTA -TA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA
756132 TTA TTA TTA
1 TTA TTA TTA
756141 AAGAAAATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:760559 original size:36 final size:33
Alignment explanation
Indices: 760497--760564 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
760487 ATGATATTTT
* *
760497 TAATATTATTTTTAATTTTTATAATTTTATAAA
1 TAATAATATTTTTAATTTTTATAATTTAATAAA
760530 TAATAATATTTTTAATTATTTAATAAATTTAATAA
1 TAATAATATTTTTAATT-TTT-AT-AATTTAATAA
760565 TTATTCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 16 0.53
34 3 0.10
35 2 0.07
36 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TAATAATATTTTTAATTTTTATAATTTAATAAA
Found at i:761345 original size:18 final size:17
Alignment explanation
Indices: 761306--761348 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
761296 ATTATATGGA
761306 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
761322 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
761340 TATTATTAT
1 TATTATTAT
761349 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:765001 original size:12 final size:11
Alignment explanation
Indices: 764978--765025 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
764968 TAAAAAGGGC
764978 AAAAAG-AAAA
1 AAAAAGCAAAA
764988 AAAAAGCAAAA
1 AAAAAGCAAAA
764999 AAAAAGCAAAA
1 AAAAAGCAAAA
*
765010 AAGAA-CAAAA
1 AAAAAGCAAAA
765020 AGAAAA
1 A-AAAA
765026 AAGAAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 12 0.35
11 22 0.65
ACGTcount: A:0.83, C:0.06, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAGCAAAA
Found at i:765019 original size:16 final size:15
Alignment explanation
Indices: 764978--765034 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 15
764968 TAAAAAGGGC
764978 AAAAAGAAAAAAA-A
1 AAAAAGAAAAAAAGA
**
764992 AGCAA-AAAAAAAGCA
1 AAAAAGAAAAAAAG-A
765007 AAAAAGAACAAAAAGA
1 AAAAAGAA-AAAAAGA
765023 AAAAAGAAAAAA
1 AAAAAGAAAAAA
765035 GGACAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
13 7 0.20
14 3 0.09
15 8 0.23
16 11 0.31
17 6 0.17
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAGA
Found at i:765032 original size:23 final size:22
Alignment explanation
Indices: 764978--765044 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
764968 TAAAAAGGGC
*
764978 AAAAAGAAAAAA-AA-AGCAAAA
1 AAAAAGAAAAAAGAACA-AAAAA
764999 AAAAAGCAAAAAAGAACAAAAAGA
1 AAAAAG-AAAAAAGAACAAAAA-A
*
765023 AAAAAGAAAAAAGGACAAAAAA
1 AAAAAGAAAAAAGAACAAAAAA
765045 CACATGCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 19 0.47
24 8 0.20
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAGAACAAAAAA
Found at i:765043 original size:9 final size:7
Alignment explanation
Indices: 764978--765035 Score: 57
Period size: 7 Copynumber: 7.9 Consensus size: 7
764968 TAAAAAGGGC
764978 AAAAAGA
1 AAAAAGA
764985 AAAAA-A
1 AAAAAGA
764991 AAGCAAA-A
1 AA--AAAGA
764999 AAAAAGCA
1 AAAAAG-A
765007 AAAAAGAA
1 AAAAAG-A
765015 CAAAAAGA
1 -AAAAAGA
765023 AAAAAGA
1 AAAAAGA
765030 AAAAAG
1 AAAAAG
765036 GACAAAAAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
6 6 0.13
7 18 0.40
8 15 0.33
9 6 0.13
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:765044 original size:24 final size:24
Alignment explanation
Indices: 764998--765043 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
764988 AAAAAGCAAA
764998 AAAAAAGCAAAAAAGAACAAAAAG
1 AAAAAAGCAAAAAAGAACAAAAAG
*
765022 AAAAAAG-AAAAAAGGACAAAAA
1 AAAAAAGCAAAAAAGAACAAAAA
765044 ACACATGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (24 bp):
AAAAAAGCAAAAAAGAACAAAAAG
Found at i:765659 original size:22 final size:22
Alignment explanation
Indices: 765631--765674 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
765621 AGCTACCCCA
765631 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
765653 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
765675 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:766758 original size:36 final size:36
Alignment explanation
Indices: 766638--766760 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
766628 ATTGAAAACA
* * *
766638 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
766674 TTTCCCTTGGAACTAAGTTTT-GTCTCTCTTAAGACAG
1 TTTCCCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
* *
766711 -TTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
766746 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
766761 AACCTTTGAA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
34 4 0.05
35 16 0.22
36 34 0.47
37 16 0.22
38 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:766854 original size:67 final size:68
Alignment explanation
Indices: 766736--766892 Score: 205
Period size: 68 Copynumber: 2.4 Consensus size: 68
766726 TTTCGTCTAT
* **
766736 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTT-TT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
766797 CTCC
66 -TCC
* * *
766801 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
766866 TCC
66 TCC
* *
766869 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
766893 ACATATATCT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 17 0.22
66 2 0.03
67 28 0.35
68 30 0.38
69 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
TCC
Found at i:767715 original size:105 final size:105
Alignment explanation
Indices: 767534--768257 Score: 1158
Period size: 105 Copynumber: 7.0 Consensus size: 105
767524 GCACTCGAGG
* * ** *
767534 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
767599 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
767640 CAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
767705 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
767745 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT---CAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
767807 ACCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
767847 CAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
767912 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* **
767952 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
768017 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
768057 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
768122 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
768162 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-A-AACTT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * *
768222 TTCAATTTCAACTTCACGACGGAGGATATTGGACTC
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTC
768258 TGAACAATGC
Statistics
Matches: 586, Mismatches: 29, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
100 37 0.06
101 1 0.00
102 100 0.17
103 5 0.01
104 1 0.00
105 404 0.69
106 38 0.06
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:767898 original size:207 final size:208
Alignment explanation
Indices: 767534--768257 Score: 1143
Period size: 207 Copynumber: 3.5 Consensus size: 208
767524 GCACTCGAGG
* * ** *
767534 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--AC-AACAACTTCTCAATTTCAG
*
767599 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACA
63 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
767664 AAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAG
128 AAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
767729 GATATTGGACTTCAGA
193 GATATTGGACTTCAGA
* *
767745 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT-CAACAACTTCTCAATTTCAGAAC
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGC
* * *
767809 CAATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGTAAGTTCAACTTCACGACGAAG
66 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
767874 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
131 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
767939 ATTGGACTTCAGA
196 ATTGGACTTCAGA
* **
767952 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--ACAACAACTTCTCAATTTCAGA
*
768017 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGA
64 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* *
768082 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGG
129 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
768147 ATATTGGACTCCAGA
194 ATATTGGACTTCAGA
*
768162 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT-CAACAAACTT-TC-A-TTCAGAT
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAAC-AACTTCTCAATTTCAGAG
* * *
768223 TCAATTTCAACTTCACGACGGAGGATATTGGACTC
65 CCAATTTCAACTTCACAACGAAGGATATTGGACTC
768258 TGAACAATGC
Statistics
Matches: 477, Mismatches: 32, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
205 36 0.08
206 1 0.00
207 203 0.43
208 6 0.01
210 196 0.41
211 35 0.07
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (208 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGC
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
ATTGGACTTCAGA
Found at i:769440 original size:18 final size:17
Alignment explanation
Indices: 769401--769443 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
769391 ATTATATGGA
769401 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
769417 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
769435 TATTATTAT
1 TATTATTAT
769444 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:770473 original size:15 final size:15
Alignment explanation
Indices: 770437--770485 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
770427 GTACTATTAA
*
770437 ATTAATTTATAAAAT
1 ATTAAGTTATAAAAT
770452 A-TAAGTTATAAAAT
1 ATTAAGTTATAAAAT
770466 ATTAAGTTATAAAAT
1 ATTAAGTTATAAAAT
770481 ATTAA
1 ATTAA
770486 ACATATAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (15 bp):
ATTAAGTTATAAAAT
Found at i:770561 original size:17 final size:16
Alignment explanation
Indices: 770529--770564 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
770519 GTAATTTAAT
770529 TAAAATATAATATTTA
1 TAAAATATAATATTTA
*
770545 TAAAATATTAATTTTTA
1 TAAAATA-TAATATTTA
770562 TAA
1 TAA
770565 TCTTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATATAATATTTA
Found at i:770972 original size:14 final size:14
Alignment explanation
Indices: 770939--770982 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
770929 TAATACATAA
770939 TTATACATTTAATATT
1 TTATA-ATTTAAT-TT
770955 TTATAATTTAATTT
1 TTATAATTTAATTT
*
770969 TTATAAATTAATTT
1 TTATAATTTAATTT
770983 AACGGTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 15 0.56
15 7 0.26
16 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAATTTAATTT
Found at i:771520 original size:24 final size:24
Alignment explanation
Indices: 771488--771535 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
771478 AAGGAGACAG
771488 ACACGACAAACTTATATAATTATA
1 ACACGACAAACTTATATAATTATA
771512 ACACGACAAACTTATATAATTATA
1 ACACGACAAACTTATATAATTATA
771536 GTACATAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (24 bp):
ACACGACAAACTTATATAATTATA
Found at i:773808 original size:20 final size:20
Alignment explanation
Indices: 773783--773820 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
773773 CATATGTTAA
773783 AGAATGCATCGATACACTGT
1 AGAATGCATCGATACACTGT
*
773803 AGAATGTATCGATACACT
1 AGAATGCATCGATACACT
773821 TCAATGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATACACTGT
Found at i:774817 original size:31 final size:32
Alignment explanation
Indices: 774714--774846 Score: 141
Period size: 32 Copynumber: 4.2 Consensus size: 32
774704 GAGTCGAGGG
* *
774714 TTACCTATGTCCTTTAAGACATATGGAC-ATAA
1 TTACCTATGTCTTTTGAGACATATGGACAAT-A
* *
774746 TTACCTATGTCTTTCGGGACATATGGACAGA-A
1 TTACCTATGTCTTTTGAGACATATGGACA-ATA
774778 TTACCTATGTCTTTTGAGACATATGGACAATA
1 TTACCTATGTCTTTTGAGACATATGGACAATA
** *
774810 -TACCTATGTTCTAATGAG-CATATGGACAGT-
1 TTACCTATG-TCTTTTGAGACATATGGACAATA
774840 TTACCTA
1 TTACCTA
774847 GGTTCTTCGG
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
31 26 0.30
32 60 0.69
34 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (32 bp):
TTACCTATGTCTTTTGAGACATATGGACAATA
Found at i:775079 original size:32 final size:33
Alignment explanation
Indices: 775043--775132 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 33
775033 GTGATTTCGG
**
775043 GACATATGGACAGAATTACCTATG-TCTTTTGA
1 GACATATGGACAGAATTACCTATGTTCTAATGA
775075 GACATATGGAC--AATATACCTATGTTCTAATGA
1 GACATATGGACAGAAT-TACCTATGTTCTAATGA
* *
775107 G-CATATGGACAG-TTTACCTAGGTTCT
1 GACATATGGACAGAATTACCTATGTTCT
775133 TCGGGACCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
30 3 0.06
31 28 0.56
32 19 0.38
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (33 bp):
GACATATGGACAGAATTACCTATGTTCTAATGA
Found at i:775492 original size:4 final size:4
Alignment explanation
Indices: 775483--777922 Score: 4342
Period size: 4 Copynumber: 621.5 Consensus size: 4
775473 AAATGATGAC
775483 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775531 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775579 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775627 ATG- ATGGT ATGT ATGT AATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT AT-GT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775676 ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775723 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775771 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775818 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775865 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775913 ATGT ATGT ATGT ATGT -TGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
775959 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776007 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
776055 ATGT ATGT ATGT ATGT ATCT -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776102 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776149 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776194 ATGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776241 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
776289 ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT -CGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
776334 ATGT ATGT CT-T ATGT ATGT ATGT ATGT ATGT ATGT ATAGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT
776382 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776430 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776477 ATGT ATGT ATGT ATGGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT ATGT
1 ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776525 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776571 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776618 -TGT ATGT ATGT A-GT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776662 ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATGT ATGT ATGT ATGT -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776708 A-GT ATGT ATGT ATGT ATGT ATGTT ATGT ATGT ATGT ATGT A--T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT
776754 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776802 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
776850 ATGT ATGT ATGT ATGT ATGT ATGT ATATT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT
776898 ATGT ATGT ATGT ATG- ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776944 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
776990 ATGT ATG- ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777035 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777083 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
777131 ATGT ATGT ATGT ATGT GT-T ATGT ATGT ATGT ATGT ATGT ATG- ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
777177 ATGT ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T
777226 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777274 ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777321 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
777368 ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGTT ATTT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT
777415 ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777461 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777508 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
777556 ATGT ATGT ATGT ATGT ATTGT CTGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777605 ATGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT ATGT A--T ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777650 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777696 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777742 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777790 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777838 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
777886 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
777923 ATGAGTTACA
Statistics
Matches: 2356, Mismatches: 16, Indels: 128
0.94 0.01 0.05
Matches are distributed among these distances:
2 26 0.01
3 82 0.03
4 2217 0.94
5 31 0.01
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:778161 original size:21 final size:21
Alignment explanation
Indices: 778119--778171 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
778109 ATTCTGACTA
778119 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
778140 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
* *
778161 TTGCAATGCGA
1 TCGCATTGCGA
778172 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:778191 original size:20 final size:20
Alignment explanation
Indices: 778163--778274 Score: 111
Period size: 20 Copynumber: 5.5 Consensus size: 20
778153 TTCCTAATTT
778163 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
* ** *
778183 GCAACGCGAATTTGGAAAATC
1 GCAATGCGAA-TACGTAAATC
*
778204 GCAATGCGATTACGTAAATC
1 GCAATGCGAATACGTAAATC
*
778224 GCAATGCGAAT-C-TGACTATC
1 GCAATGCGAATACGT-A-AATC
* *
778244 GCAATGCTATTACGTAAATC
1 GCAATGCGAATACGTAAATC
778264 GCAATGCGAAT
1 GCAATGCGAAT
778275 CTGACTATCG
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
18 1 0.01
19 2 0.03
20 50 0.70
21 17 0.24
22 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
GCAATGCGAATACGTAAATC
Found at i:778256 original size:40 final size:40
Alignment explanation
Indices: 778163--778294 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
778153 TTCCTAATTT
* * * **
778163 GCAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAATC
1 GCAATGCGATTACGTAAATCGCAATGCGAATCT-GACTATC
778204 GCAATGCGATTACGTAAATCGCAATGCGAATCTGACTATC
1 GCAATGCGATTACGTAAATCGCAATGCGAATCTGACTATC
*
778244 GCAATGCTATTACGTAAATCGCAATGCGAATCTGACTATC
1 GCAATGCGATTACGTAAATCGCAATGCGAATCTGACTATC
778284 GCAATGCGATT
1 GCAATGCGATT
778295 TACATAGCGC
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 54 0.64
41 30 0.36
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (40 bp):
GCAATGCGATTACGTAAATCGCAATGCGAATCTGACTATC
Found at i:778284 original size:20 final size:20
Alignment explanation
Indices: 778221--778292 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
778211 GATTACGTAA
778221 ATCGCAATGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
*
778241 ATCGCAATGC-TAT-T-ACGT
1 ATCGCAATGCGAATCTGAC-T
778259 AAATCGCAATGCGAATCTGACT
1 --ATCGCAATGCGAATCTGACT
778281 ATCGCAATGCGA
1 ATCGCAATGCGA
778293 TTTACATAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 2 0.05
20 32 0.73
21 2 0.05
22 2 0.05
23 2 0.05
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATCTGACT
Found at i:778883 original size:20 final size:20
Alignment explanation
Indices: 778858--778906 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
778848 CAACGAGTGA
*
778858 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
778878 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
778898 ATCGCAACG
1 ATCGCAACG
778907 AGAGAATCGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:778973 original size:20 final size:20
Alignment explanation
Indices: 778948--778997 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
778938 TGCGATTCTT
778948 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
778968 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
778988 GTGTTGCGAT
1 GCGTTGCGAT
778998 TTTCATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:779003 original size:20 final size:20
Alignment explanation
Indices: 778965--779019 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
778955 GATAGTCAAA
* **
778965 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
778985 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
779005 TTTGTGTTGCGATTT
1 TTCGTGTTGCGATTT
779020 AAAGTTTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.15, G:0.24, T:0.51
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:779027 original size:20 final size:21
Alignment explanation
Indices: 778983--779027 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
778973 GCGATAGTCA
**
778983 TTTTCGTGTTGCGATTTTCA-
1 TTTTCGTGTTGCGATTTAAAG
*
779003 TTTTTGTGTTGCGATTTAAAG
1 TTTTCGTGTTGCGATTTAAAG
779024 TTTT
1 TTTT
779028 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.13, C:0.09, G:0.20, T:0.58
Consensus pattern (21 bp):
TTTTCGTGTTGCGATTTAAAG
Found at i:780578 original size:20 final size:20
Alignment explanation
Indices: 780553--780683 Score: 166
Period size: 20 Copynumber: 6.8 Consensus size: 20
780543 AAGATATTTT
*
780553 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
*
780573 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
780593 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
780609 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
780627 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
780647 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
780667 ACTATTGCAATACGAAA
1 ACTATCGCAATGCGAAA
780684 TGAAAATCGC
Statistics
Matches: 97, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.07
16 4 0.04
17 4 0.04
18 4 0.04
20 78 0.80
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:780686 original size:19 final size:19
Alignment explanation
Indices: 780553--780700 Score: 135
Period size: 20 Copynumber: 7.8 Consensus size: 19
780543 AAGATATTTT
*
780553 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGC-GAAATG
*
780573 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCG-AAATG
*
780593 ACTATCGCAA--CGAGA-G
1 ACTATCGCAATGCGAAATG
780609 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCG-AAATG
*
780627 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGC-GAAATG
780647 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCG-AAATG
* *
780667 ACTATTGCAATACGAAATG
1 ACTATCGCAATGCGAAATG
** *
780686 AAAATCGCATTGCGA
1 ACTATCGCAATGCGA
780701 TTCTCTCGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.07
16 4 0.04
17 4 0.04
18 4 0.04
19 15 0.14
20 72 0.68
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (19 bp):
ACTATCGCAATGCGAAATG
Found at i:780734 original size:20 final size:20
Alignment explanation
Indices: 780707--780870 Score: 140
Period size: 20 Copynumber: 8.8 Consensus size: 20
780697 GCGATTCTCT
**
780707 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
780727 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
780747 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
780767 CGTTGCGAT--T--TTGTT--
1 CGTTGCGATAGTCATT-TTCG
**
780782 -GTTGCGATTTTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
* *
780800 CATTGCGAT--TC----TCT
1 CGTTGCGATAGTCATTTTCG
780814 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
780834 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
780854 CGTTGCGATAGTCATTT
1 CGTTGCGATAGTCATTT
780871 GCAGATTCTA
Statistics
Matches: 118, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
14 18 0.15
16 7 0.06
17 5 0.04
18 1 0.01
19 7 0.06
20 80 0.68
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:781387 original size:18 final size:19
Alignment explanation
Indices: 781348--781391 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
781338 CTCACCTGTC
781348 ATCATTCAAGAGGCCTCCCCT
1 ATCATTCAAGAGG-C-CCCCT
781369 ATCATTCAAGAGG-CCCCT
1 ATCATTCAAGAGGCCCCCT
781387 ATCAT
1 ATCAT
781392 CTCTCAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.43
21 13 0.57
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (19 bp):
ATCATTCAAGAGGCCCCCT
Found at i:782830 original size:14 final size:14
Alignment explanation
Indices: 782811--782846 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
782801 ATTGTTTAAT
782811 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
782825 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
782839 TGATTTGT
1 TGATTTGT
782847 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:783054 original size:20 final size:19
Alignment explanation
Indices: 783019--783087 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
783009 CGCGAAACTA
*
783019 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
783038 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
783056 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
783072 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
783088 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 6 0.15
16 7 0.17
17 3 0.07
18 4 0.10
19 9 0.22
20 12 0.29
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:783068 original size:34 final size:34
Alignment explanation
Indices: 783025--783120 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
783015 ACTAATTTCG
783025 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
783059 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
783092 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
783121 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:783117 original size:20 final size:20
Alignment explanation
Indices: 783092--783205 Score: 169
Period size: 20 Copynumber: 5.7 Consensus size: 20
783082 GCGATTCTCT
783092 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
783112 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
783132 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
783152 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
783172 CGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
783192 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
783206 AATGAATGTC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 85 0.98
21 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:785402 original size:14 final size:14
Alignment explanation
Indices: 785383--785409 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
785373 TCCCGTGGCA
785383 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
785397 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
785410 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:786530 original size:20 final size:20
Alignment explanation
Indices: 786507--786693 Score: 250
Period size: 20 Copynumber: 9.3 Consensus size: 20
786497 TAGAATCTCG
786507 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
*
786527 TTGCAATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
786547 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
786567 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
786587 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
*
786607 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* * *
786627 TTACGATTTACATAATCGCA
1 TTGCGATTTACGTATTCGCA
* * ** *
786647 TTGCTATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
786668 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
786688 TTGCGA
1 TTGCGA
786694 ATTAGGAAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
19 1 0.01
20 129 0.89
21 15 0.10
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:786550 original size:60 final size:59
Alignment explanation
Indices: 786486--786693 Score: 197
Period size: 60 Copynumber: 3.4 Consensus size: 59
786476 GAAATTCAGT
*
786486 ATTGCGATAGTTA-GAATCTCG-TTGCGATTTACAG-ATTCGCATTGCAATTTACGTATTCGC
1 ATTGCGAT--TTACGAAT-TCGATTGCGATTTAC-GTATTCGCATTGCAATTTACGTAATCGC
* *
786546 ATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGC
1 ATTGCGATTTACGAATTCG-ATTGCGATTTACGTATTCGCATTGCAATTTACGTAATCGC
* * * * * * * **
786606 ATTGTGATTTACGTATTCGCATTACGATTTACATAATCGCATTGCTATTTTCCAAATTCGC
1 ATTGCGATTTACGAATTCG-ATTGCGATTTACGTATTCGCATTGCAATTTACGTAA-TCGC
* *
786667 GTTGCGATTTACGTATTCGCATTGCGA
1 ATTGCGATTTACGAATTCG-ATTGCGA
786694 ATTAGGAAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
58 6 0.05
59 4 0.03
60 91 0.71
61 28 0.22
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (59 bp):
ATTGCGATTTACGAATTCGATTGCGATTTACGTATTCGCATTGCAATTTACGTAATCGC
Found at i:789683 original size:20 final size:20
Alignment explanation
Indices: 789658--789695 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
789648 CATATGTTAA
789658 AGAATGCATCGATACACTGT
1 AGAATGCATCGATACACTGT
*
789678 AGAATGTATCGATACACT
1 AGAATGCATCGATACACT
789696 TCAATGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATACACTGT
Found at i:790745 original size:32 final size:32
Alignment explanation
Indices: 790704--790786 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 32
790694 GAGTCAAGGG
*
790704 TTACCTATGTCTTTTGAGACACATGGACAGAA
1 TTACCTATGTCTTTTGAGACACATAGACAGAA
* * * *
790736 TTACCTATGTCTTTCGGGACATATAGACATAA
1 TTACCTATGTCTTTTGAGACACATAGACAGAA
790768 TTACC--TGTCTTTTGAGACA
1 TTACCTATGTCTTTTGAGACA
790787 TATGAACAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 12 0.27
32 32 0.73
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (32 bp):
TTACCTATGTCTTTTGAGACACATAGACAGAA
Found at i:790879 original size:30 final size:31
Alignment explanation
Indices: 790818--790884 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
790808 CTAAGGAGTA
*
790818 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAGTTTACCTAGGTTCTTCAGGACC
* *
790849 TATGGACAG-TTA-CTGAGGTTCTTTATGACC
1 TATGGACAGTTTACCT-AGGTTCTTCAGGACC
790879 TATGGA
1 TATGGA
790885 TAGGTCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 21 0.66
31 9 0.28
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (31 bp):
TATGGACAGTTTACCTAGGTTCTTCAGGACC
Found at i:791176 original size:167 final size:170
Alignment explanation
Indices: 790896--791234 Score: 648
Period size: 167 Copynumber: 2.0 Consensus size: 170
790886 AGGTCATTCG
790896 GGCCATTTATACGAGATGTGGTGACAACGTAGTGCACAACCTCAATAAACTCACATATCTATAGT
1 GGCCATTTATACGAGA-GTGGTGACAACGTAGTGCACAACCTCAATAAACTCACATATCTATAGT
790961 TATCACATGTGCACATGGGCTAATAAAGAGATAATTCTGAATATAATATAAGTACTATATATAAT
65 TATCACATGTGCACATGGGCTAATAAAGAGATAATTCTGAATATAATATAAGTACTATATATAAT
791026 TTGTGATATGAATTGTAGAAATTGTTATATGTGTGTTATGA
130 TTGTGATATGAATTGTAGAAATTGTTATATGTGTGTTATGA
791067 GGCCATTTATACGAGA-T-GTGACAACGTAGTGCA-AACCTCAATAAACTCACATATCTATAGTT
1 GGCCATTTATACGAGAGTGGTGACAACGTAGTGCACAACCTCAATAAACTCACATATCTATAGTT
791129 ATCACATGTGCACATGGGCTAATAAAGAGATAATTCTGAATATAATATAAGTACTATATATAATT
66 ATCACATGTGCACATGGGCTAATAAAGAGATAATTCTGAATATAATATAAGTACTATATATAATT
791194 TGTGATATGAATTGTAGAAATTGTTATATGTGTGTTATGA
131 TGTGATATGAATTGTAGAAATTGTTATATGTGTGTTATGA
791234 G
1 G
791235 TGAATGCATT
Statistics
Matches: 168, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
167 135 0.80
168 16 0.10
169 1 0.01
171 16 0.10
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (170 bp):
GGCCATTTATACGAGAGTGGTGACAACGTAGTGCACAACCTCAATAAACTCACATATCTATAGTT
ATCACATGTGCACATGGGCTAATAAAGAGATAATTCTGAATATAATATAAGTACTATATATAATT
TGTGATATGAATTGTAGAAATTGTTATATGTGTGTTATGA
Found at i:793929 original size:92 final size:96
Alignment explanation
Indices: 793762--793943 Score: 264
Period size: 92 Copynumber: 1.9 Consensus size: 96
793752 GACATATATG
* * *
793762 TATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATACTTGGCATATGTATATGAT
1 TATTCTTTGGAACA--TGTGAAGTCTGGTGAGACACATACTTGATACCTAGCATATATATATGAT
* *
793827 TCTTAAGGAATGATATGTGGTCCTTCGGGAATA
64 TCTTAAGGAATGATATATAGTCCTTCGGGAATA
*
793860 TATTCTTTGGAACA-GTGAAGTCT-G-GAGACACATACTTGAT-CCTAGTATATATATATGATTC
1 TATTCTTTGGAACATGTGAAGTCTGGTGAGACACATACTTGATACCTAGCATATATATATGATTC
793921 TTAAGGAATGATATATAGTCCTT
66 TTAAGGAATGATATATAGTCCTT
793944 ATGGACATAT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
92 38 0.49
93 16 0.21
94 1 0.01
95 9 0.12
98 14 0.18
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (96 bp):
TATTCTTTGGAACATGTGAAGTCTGGTGAGACACATACTTGATACCTAGCATATATATATGATTC
TTAAGGAATGATATATAGTCCTTCGGGAATA
Found at i:794803 original size:137 final size:139
Alignment explanation
Indices: 794560--794835 Score: 513
Period size: 137 Copynumber: 2.0 Consensus size: 139
794550 CTGATATATA
794560 TTTTGTAAACGTTTTAAATAAGTTAAATGTTATCAAAGTTTTAAATTACTCACTATTTTATACGA
1 TTTTGTAAACGTTTTAAATAAGTTAAATGTTATCAAAGTTTTAAATTACTCACTATTTTATACGA
794625 ATAAATGTTTGAAAAGTCAATGTGACACTTCGGACTCGTAT-CGGATCGG-ATGGGTTGGGGGTG
66 ATAAATGTTTGAAAAGTCAATGTGACACTTCGGACTCGTATCCGGATCGGAATGGGTTGGGGGTG
794688 TTACACTAT
131 TTACACTAT
794697 TTTTGT-AACGTTTTAAATAAGTTAAATGTTATCAAAGTTTTTAAATTACTCACTATTTTATACG
1 TTTTGTAAACGTTTTAAATAAGTTAAATGTTATCAAAG-TTTTAAATTACTCACTATTTTATACG
794761 AATAAATGTTTGAAAAGTCAATGTGACACTTCGGACTCGTATCCGGATCGGATATGGGTTGGGGG
65 AATAAATGTTTGAAAAGTCAATGTGACACTTCGGACTCGTATCCGGATCGGA-ATGGGTTGGGGG
794826 TGTTACACTA
129 TGTTACACTA
794836 AGTCATAGAC
Statistics
Matches: 135, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
136 31 0.23
137 74 0.55
138 8 0.06
140 22 0.16
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (139 bp):
TTTTGTAAACGTTTTAAATAAGTTAAATGTTATCAAAGTTTTAAATTACTCACTATTTTATACGA
ATAAATGTTTGAAAAGTCAATGTGACACTTCGGACTCGTATCCGGATCGGAATGGGTTGGGGGTG
TTACACTAT
Found at i:798565 original size:31 final size:31
Alignment explanation
Indices: 798521--798586 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
798511 GAGTTTACTG
* * * *
798521 ATTA-TAGTGACATATCATTGTAATTCTTTA
1 ATTATTAGCGACATATCACTATAATACTTTA
*
798551 ATTATTAGCGACATATCACTATAGTACTTTA
1 ATTATTAGCGACATATCACTATAATACTTTA
798582 ATTAT
1 ATTAT
798587 GTTAAGCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (31 bp):
ATTATTAGCGACATATCACTATAATACTTTA
Found at i:799968 original size:2 final size:2
Alignment explanation
Indices: 799961--799996 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
799951 TTCTCCTGAT
799961 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
799997 TTTGCTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:802612 original size:217 final size:214
Alignment explanation
Indices: 802233--802671 Score: 763
Period size: 217 Copynumber: 2.0 Consensus size: 214
802223 GAGGAGATAA
802233 CACGTGAATTTTCCGCCATCATGGCCACTGGAACATTGCGAGCTAGTGAGGCAGCAGCACTGGCG
1 CACGTGAATTTTCCGCCATCATGGCCACTGGAACATTGCGAGCTAGTGAGGCAGCAGCACTGGCG
802298 ACCAGAAAAGTGATGCAGAAATACGGGCACTTGAAATGTGCCATGCCACAGAGTAGATGCAGGAA
66 ACCAGAAAAGTGATGCAGAAATACGGGCACTTGAAATGTGCCATGCCACAGAGTAGATGCAGGAA
802363 GATTAAAGGAAAAAAAACTTTGTTTCTTTTCTTCCTTGCAGGTGCAGCCATGGATATTTGGATTC
131 GATTAAAGGAAAAAAAACTTTG--T-TTTTCTTCCTTGCAGGTGCAGCCATGGATATTTGGATTC
802428 GGACAAATTGAAATCATTTCAT
193 GGACAAATTGAAATCATTTCAT
802450 CACGTGAATTTTCCGCCATCATGGCCACTGGAACATTGCGAGCTAGTGAGGCAGCAGCACTGGCG
1 CACGTGAATTTTCCGCCATCATGGCCACTGGAACATTGCGAGCTAGTGAGGCAGCAGCACTGGCG
802515 ACCAGAAAAGTGATGCAGAAATACGGGCACTTG-AATGTTGCCATGCCACAGAGTTAGATGCAGG
66 ACCAGAAAAGTGATGCAGAAATACGGGCACTTGAAATG-TGCCATGCCACAGAG-TAGATGCAGG
802579 AAAGATTAAAGGAAAAAAAGAACTTTGTTTTCTTTTCTTCCTTGCAGGTGCAGCCATGGATATTT
129 -AAGATTAAAGG-AAAAAA-AACTTTG---T-TTTTCTTCCTTGCAGGTGCAGCCATGGATATTT
802644 GGATTCGGACAAATTGAAATCATTTCAT
187 GGATTCGGACAAATTGAAATCATTTCAT
802672 AATAATGACT
Statistics
Matches: 216, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
216 4 0.02
217 113 0.52
218 10 0.05
219 11 0.05
220 6 0.03
221 7 0.03
222 65 0.30
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (214 bp):
CACGTGAATTTTCCGCCATCATGGCCACTGGAACATTGCGAGCTAGTGAGGCAGCAGCACTGGCG
ACCAGAAAAGTGATGCAGAAATACGGGCACTTGAAATGTGCCATGCCACAGAGTAGATGCAGGAA
GATTAAAGGAAAAAAAACTTTGTTTTTCTTCCTTGCAGGTGCAGCCATGGATATTTGGATTCGGA
CAAATTGAAATCATTTCAT
Found at i:806519 original size:21 final size:21
Alignment explanation
Indices: 806471--806520 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
806461 ATGACTATCA
806471 CAATGCGATTTTCCAATTTCG
1 CAATGCGATTTTCCAATTTCG
**
806492 CGTTGCGATTTTCCCAA-TTCG
1 CAATGCGATTTT-CCAATTTCG
806513 CAATGCGA
1 CAATGCGA
806521 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (21 bp):
CAATGCGATTTTCCAATTTCG
Found at i:806535 original size:20 final size:20
Alignment explanation
Indices: 806510--806562 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
806500 TTTTCCCAAT
806510 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
806530 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
*
806550 TCACAATGCGAAT
1 TCGCAATGCGAAT
806563 TTTGGAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:806626 original size:21 final size:21
Alignment explanation
Indices: 806592--806664 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
806582 ATACTGACTA
* *
806592 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
806613 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
806633 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
806654 TCGCAATGCGA
1 TCGCAATGCGA
806665 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:806679 original size:20 final size:20
Alignment explanation
Indices: 806654--806765 Score: 129
Period size: 20 Copynumber: 5.5 Consensus size: 20
806644 TTTTCATAAT
806654 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
806674 TCGCAACGC-AATTAAGTAAA
1 TCGCAATGCGAA-TACGTAAA
* *
806694 TCGCAATGCGAATTAAGAAAA
1 TCGCAATGCGAA-TACGTAAA
806715 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
806735 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
806755 TCGCAATGCGA
1 TCGCAATGCGA
806766 TTTACATAGC
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
19 5 0.06
20 54 0.67
21 22 0.27
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:806734 original size:41 final size:41
Alignment explanation
Indices: 806654--806747 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
806644 TTTTCATAAT
* *
806654 TCGCAATGCGAA-TACGTAAATCGCAACGCAATTAAGTAAA
1 TCGCAATGCGAATTAAGAAAATCGCAACGCAATTAAGTAAA
* *
806694 TCGCAATGCGAATTAAGAAAATCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTAAGAAAATCGCAACGC-AATTAAGTAAA
806735 TCGCAATGCGAAT
1 TCGCAATGCGAAT
806748 CTTACTATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
40 12 0.25
41 34 0.71
42 2 0.04
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (41 bp):
TCGCAATGCGAATTAAGAAAATCGCAACGCAATTAAGTAAA
Found at i:807320 original size:19 final size:19
Alignment explanation
Indices: 807282--807348 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
807272 TTCGAGAATG
807282 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
807302 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
807321 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
807340 AAAATCGCA
1 AAAATCGCA
807349 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:807385 original size:14 final size:14
Alignment explanation
Indices: 807366--807421 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
807356 TTTCATTTCG
807366 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
807380 CGTTGCGATAGTCATTTCA
1 CGTTGCGAT--TC---TCT
807399 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
807413 CGTTGCGAT
1 CGTTGCGAT
807422 AGTCATTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:807395 original size:33 final size:33
Alignment explanation
Indices: 807349--807445 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
807339 CAAAATCGCA
**
807349 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
*
807382 TTGCGATAGTCATTTCACGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
807415 TTGCGATAGTCATTTCTGCGTTGCGATTCTC
1 TTGCGATAGTCATTTC-GCGTTGCGATTCTC
807446 ATTATCTCGT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 46 0.78
34 13 0.22
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.42
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:807438 original size:20 final size:19
Alignment explanation
Indices: 807377--807461 Score: 90
Period size: 20 Copynumber: 4.6 Consensus size: 19
807367 GTTGCGATTC
807377 TCTCGTTGCGATAGTCATT
1 TCTCGTTGCGATAGTCATT
*
807396 TCACGTTGCGAT--TC---
1 TCTCGTTGCGATAGTCATT
807410 TCTCGTTGCGATAGTCATT
1 TCTCGTTGCGATAGTCATT
**
807429 TCTGCGTTGCGATTCTCATT
1 TCT-CGTTGCGATAGTCATT
807449 ATCTCGTTGCGAT
1 -TCTCGTTGCGAT
807462 TTTCATTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.20
16 2 0.04
17 2 0.04
19 14 0.25
20 23 0.42
21 3 0.05
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (19 bp):
TCTCGTTGCGATAGTCATT
Found at i:807462 original size:20 final size:19
Alignment explanation
Indices: 807349--807470 Score: 84
Period size: 20 Copynumber: 6.8 Consensus size: 19
807339 CAAAATCGCA
* *
807349 TTGCGATTTTCATTTCGCG
1 TTGCGATTCTCATTTCTCG
807368 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
** *
807382 TTGCGATAGTCATTTCACG
1 TTGCGATTCTCATTTCTCG
807401 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
**
807415 TTGCGATAGTCATTTCTGCG
1 TTGCGATTCTCATTTCT-CG
807435 TTGCGATTCTCATTATCTCG
1 TTGCGATTCTCATT-TCTCG
*
807455 TTGCGATTTTCATTTC
1 TTGCGATTCTCATTTC
807471 AACCAAAAGA
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
14 20 0.24
16 4 0.05
17 4 0.05
18 1 0.01
19 21 0.26
20 29 0.35
21 3 0.04
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TTGCGATTCTCATTTCTCG
Found at i:809322 original size:91 final size:90
Alignment explanation
Indices: 809148--809330 Score: 273
Period size: 91 Copynumber: 2.0 Consensus size: 90
809138 TAGATTGCTT
*
809148 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTATGAAGTTAGTATTT
809213 GTCTTTTTGTTTTGTCTTTTGGTTGA
66 GTC-TTTTGTTTTGTCTTTTGGTTGA
* *
809239 AGTAAATTTATTC-GTTGCTGCC-ATTCTGCTAAACTGTGTATTCTTTAACACTATGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTATGAAGTTAGT
809302 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
62 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
809330 A
1 A
809331 AGTTTGAAAT
Statistics
Matches: 85, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
89 11 0.13
90 9 0.11
91 38 0.45
92 2 0.02
93 25 0.29
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.48
Consensus pattern (90 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTATGAAGTTAGTATTT
GTCTTTTGTTTTGTCTTTTGGTTGA
Found at i:809628 original size:21 final size:21
Alignment explanation
Indices: 809604--809670 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
809594 TCATTCCTCG
809604 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
809625 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
809646 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
809667 AGAG
1 AGAG
809671 CCTGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:809628 original size:42 final size:42
Alignment explanation
Indices: 809552--809670 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
809542 GACTCGCCTG
* * * * * * *
809552 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
809594 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
809636 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
809671 CCTGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:811020 original size:14 final size:14
Alignment explanation
Indices: 811001--811036 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
810991 ATTGTTTAAT
811001 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
811015 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
811029 TGATTTGT
1 TGATTTGT
811037 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:811168 original size:19 final size:19
Alignment explanation
Indices: 811144--811223 Score: 80
Period size: 19 Copynumber: 4.5 Consensus size: 19
811134 AAAAAGTACT
*
811144 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
811163 ATCGCAACGTGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
811182 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
811196 ATCGTAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
811215 ATTGCAACG
1 ATCGCAACG
811224 ACAAAATCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
14 9 0.19
15 1 0.02
16 2 0.04
17 1 0.02
18 1 0.02
19 34 0.71
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:811210 original size:33 final size:33
Alignment explanation
Indices: 811160--811242 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
811150 ATGCGAAATG
* *
811160 AAAATCGCAACGTGAAATGAAAATCGCAACGAG
1 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
* * *
811193 AGAATCGTAACGCGAAATGAAAATTGCAACGAC
1 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
811226 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
811243 CTAAATTCGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.12
Consensus pattern (33 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:811309 original size:19 final size:19
Alignment explanation
Indices: 811281--811345 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
811271 CATTGCAAAA
* *
811281 TTCGCGTTGCAATTTTCAT
1 TTCGCATTGCGATTTTCAT
811300 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
811316 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
811333 TTCGCATTGCGAT
1 TTCGCATTGCGAT
811346 AGTAATTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 6 0.16
16 7 0.19
17 7 0.19
19 17 0.46
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:811343 original size:33 final size:32
Alignment explanation
Indices: 811248--811345 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 32
811238 CGAAACTAAA
* * * *
811248 TTCGTGTTGTGATTTTCATTTCGCATTGCAAAA
1 TTCGCGTTGCGATTTTCATTTCGCATTGC-GAT
*
811281 TTCGCGTTGCAATTTTCATTTCGCATTGCGAT
1 TTCGCGTTGCGATTTTCATTTCGCATTGCGAT
*
811313 TCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 T-TCGCGTTGCGATTTTCATTTCGCATTGCGAT
811346 AGTAATTTCC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (32 bp):
TTCGCGTTGCGATTTTCATTTCGCATTGCGAT
Found at i:813655 original size:12 final size:12
Alignment explanation
Indices: 813638--813662 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
813628 TCTTCGGGGA
813638 CTTTTTCTTCTT
1 CTTTTTCTTCTT
813650 CTTTTTCTTCTT
1 CTTTTTCTTCTT
813662 C
1 C
813663 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:813871 original size:24 final size:24
Alignment explanation
Indices: 813837--813890 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
813827 CTGAAACATC
813837 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
813861 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
813885 ATCAAA
1 ATCAAA
813891 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:813904 original size:24 final size:24
Alignment explanation
Indices: 813837--813904 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
813827 CTGAAACATC
* * *
813837 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
813861 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
813885 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
813905 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:814728 original size:20 final size:20
Alignment explanation
Indices: 814695--814768 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
814685 GAATAAGTAA
* *
814695 ATCGCAATGTGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
814715 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
814736 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
*
814756 TTCGCAACGAGAT
1 ATCGCAACGAGAT
814769 TCTAAAAATC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.05
20 25 0.58
21 14 0.33
22 2 0.05
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:814738 original size:41 final size:40
Alignment explanation
Indices: 814693--814783 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
814683 GCGAATAAGT
*
814693 AAATCGCAATGTGATACTGACTATCGCAACGAGATAATACA
1 AAATCGCAATGAGATACTGACTATCGCAACGAGATAATA-A
* * * **
814734 AAATCGCAACGAGATTCTGACTTTCGCAACGAGATTCTAA
1 AAATCGCAATGAGATACTGACTATCGCAACGAGATAATAA
814774 AAATCGCAAT
1 AAATCGCAAT
814784 CATCTTCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 10 0.23
41 33 0.77
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (40 bp):
AAATCGCAATGAGATACTGACTATCGCAACGAGATAATAA
Found at i:814780 original size:20 final size:20
Alignment explanation
Indices: 814715--814782 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
814705 GATACTGACT
**
814715 ATCGCAACGAGATAATACAAA
1 ATCGCAACGAGATTCTA-AAA
* **
814736 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTAAAA
*
814756 TTCGCAACGAGATTCTAAAA
1 ATCGCAACGAGATTCTAAAA
814776 ATCGCAA
1 ATCGCAA
814783 TCATCTTCAA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGATTCTAAAA
Found at i:815029 original size:20 final size:20
Alignment explanation
Indices: 815004--815063 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
814994 AAATCACAAA
815004 GCGAAAATGGCTATCGCAAC
1 GCGAAAATGGCTATCGCAAC
***
815024 GCG-AAATGAAAAATCGCAAC
1 GCGAAAATG-GCTATCGCAAC
815044 GCGAAAATGGCTATCGCAAC
1 GCGAAAATGGCTATCGCAAC
815064 TAGAAAATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.16
20 22 0.69
21 5 0.16
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (20 bp):
GCGAAAATGGCTATCGCAAC
Found at i:815129 original size:33 final size:33
Alignment explanation
Indices: 815092--815157 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
815082 AATGAAAATC
* **
815092 GCATTGCGATTTTCTCGTTGCGATTTTCATTTT
1 GCATTGCGATTTTCTCGTTACGATAGTCATTTT
815125 GCATTGCGATTTTCTCGTTACGATAGTCATTTT
1 GCATTGCGATTTTCTCGTTACGATAGTCATTTT
815158 CGTGTTGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.48
Consensus pattern (33 bp):
GCATTGCGATTTTCTCGTTACGATAGTCATTTT
Found at i:816768 original size:41 final size:42
Alignment explanation
Indices: 816723--816814 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
816713 CCTCTTCAAC
*
816723 GATGACAGTGGCCTCTTGAACG-GT-GAGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGA-GGGGACTCTTGAGG
* *
816764 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
*
816806 AATGACAGG
1 GATGACAGG
816815 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
41 20 0.45
42 22 0.50
43 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.40, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:817177 original size:20 final size:20
Alignment explanation
Indices: 817152--817224 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
817142 GAAGAATAGT
*
817152 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
817172 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* * * *
817192 TGACTATCGCAACGCGTAAA
1 TTACTTTCGCAACACGAAAA
* *
817212 TGACTATCGCAAC
1 TTACTTTCGCAAC
817225 GCTGAAATGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:817202 original size:40 final size:40
Alignment explanation
Indices: 817158--817243 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
817148 TAGTTTACTT
* *
817158 TCGCAACACG-AAACTTACTTTCGCAACGC-GAAAATGACTA
1 TCGCAACACGTAAA-TGACTATCGCAACGCTG-AAATGACTA
* *
817198 TCGCAACGCGTAAATGACTATCGCAACGCTGAAATGGCTA
1 TCGCAACACGTAAATGACTATCGCAACGCTGAAATGACTA
817238 TCGCAA
1 TCGCAA
817244 TGCGAAATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.20
Consensus pattern (40 bp):
TCGCAACACGTAAATGACTATCGCAACGCTGAAATGACTA
Found at i:817225 original size:20 final size:20
Alignment explanation
Indices: 817178--817253 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
817168 AAACTTACTT
*
817178 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGTAAATGACTA
817198 TCGCAACGCGTAAATGACTA
1 TCGCAACGCGTAAATGACTA
*
817218 TCGCAACGC-TGAAATGGCTA
1 TCGCAACGCGT-AAATGACTA
*
817238 TCGCAATGCG-AAATGA
1 TCGCAACGCGTAAATGA
817254 AAATCGTAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 6 0.12
20 44 0.88
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGTAAATGACTA
Found at i:817317 original size:19 final size:19
Alignment explanation
Indices: 817295--817356 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
817285 ACAAATCGTA
817295 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
817314 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
817328 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
817347 TTGCGATTTT
1 TTGCGATTTT
817357 GTCGTTGCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 8 0.23
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 17 0.49
ACGTcount: A:0.11, C:0.18, G:0.21, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:817331 original size:14 final size:14
Alignment explanation
Indices: 817312--817367 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
817302 TTTCATTTCG
817312 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
817326 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
817343 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
817359 CGTTGCGAT
1 CGTTGCGAT
817368 AGCCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 15 0.43
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 6 0.17
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:817337 original size:33 final size:33
Alignment explanation
Indices: 817295--817387 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
817285 ACAAATCGTA
817295 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
817328 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
***
817361 TTGCGATAGCCATTTCCGCGTTGCGAT
1 TTGCGATTTTCATTT-CGCGTTGCGAT
817388 AGTCATTTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 44 0.81
34 10 0.19
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:817410 original size:20 final size:20
Alignment explanation
Indices: 817359--817410 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
817349 GCGATTTTGT
* *
817359 CGTTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTACG
817379 CGTTGCGATAGTCATTTACG
1 CGTTGCGATAGTCATTTACG
817399 CGTTGCGATAGT
1 CGTTGCGATAGT
817411 AAACTACTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTACG
Found at i:819322 original size:20 final size:20
Alignment explanation
Indices: 819297--819338 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
819287 ATAGTTTCTA
819297 AAAATGAAAATCGCAACACG
1 AAAATGAAAATCGCAACACG
*
819317 AAAATGAAAATCGCAACGCG
1 AAAATGAAAATCGCAACACG
819337 AA
1 AA
819339 TTTGACTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.19, G:0.17, T:0.10
Consensus pattern (20 bp):
AAAATGAAAATCGCAACACG
Found at i:819635 original size:20 final size:21
Alignment explanation
Indices: 819610--819659 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
819600 CTCTGAGAGA
819610 TGGAGAT-AGACGGATTTCGC
1 TGGAGATGAGACGGATTTCGC
*
819630 TGGAGATGGGGACGGATTTCG-
1 TGGAGAT-GAGACGGATTTCGC
819651 TCGGAGATG
1 T-GGAGATG
819660 GGTGAGAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 2 0.08
22 17 0.65
ACGTcount: A:0.22, C:0.12, G:0.42, T:0.24
Consensus pattern (21 bp):
TGGAGATGAGACGGATTTCGC
Found at i:819646 original size:22 final size:22
Alignment explanation
Indices: 819618--819661 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
819608 GATGGAGATA
819618 GACGGATTTCG-CTGGAGATGGG
1 GACGGATTTCGTC-GGAGATGGG
819640 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
819662 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:819953 original size:41 final size:41
Alignment explanation
Indices: 819834--819971 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 41
819824 CGCTTTGAAA
* * * *
819834 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTATATTATCGCGTTGCGAAAGTCAGT
* * ** * *
819875 ATTGAGTTGCGAAATTA-AGTATCGAGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTATATTATCGCGTTGCGAAAGTCAGT
*
819915 ATCGCGTTGCGATTTTATATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTATATTATCGCGTTGCGAAAGTCAGT
*
819956 ACCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
819972 CCAAATTCGC
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 33 0.42
41 45 0.58
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTATATTATCGCGTTGCGAAAGTCAGT
Found at i:819968 original size:20 final size:20
Alignment explanation
Indices: 819854--819967 Score: 102
Period size: 20 Copynumber: 5.7 Consensus size: 20
819844 GATTATGTAT
*
819854 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * * *
819874 TATTGAGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
*
819894 TATCGAGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*** * *
819914 TATCGCGTTGCGATTTTATAT
1 TATCGCGTTGCGAAAGT-CAG
*
819935 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
819955 TACCGCGTTGCGA
1 TATCGCGTTGCGA
819968 TTTTCCAAAT
Statistics
Matches: 74, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
20 58 0.78
21 16 0.22
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:819987 original size:41 final size:41
Alignment explanation
Indices: 819861--819989 Score: 113
Period size: 41 Copynumber: 3.2 Consensus size: 41
819851 TATTATCTCG
** * ** *
819861 TTGCGAAAGTCAGTATTGAGTTGCGAAATTA-AGTATCG-A
1 TTGCGAAAGTCAGTACCGCGTTGCGATTTTATAATATCGCA
* * *
819900 GTTGCGAAAGTCAGTATCGCGTTGCGATTTTATATTATCGCG
1 -TTGCGAAAGTCAGTACCGCGTTGCGATTTTATAATATCGCA
*
819942 TTGCGATAGTCAGTACCGCGTTGCGATTTTCCA-AAT-TCGCA
1 TTGCGAAAGTCAGTACCGCGTTGCGATTTT--ATAATATCGCA
819983 TTGCGAA
1 TTGCGAA
819990 TTGGGAAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
40 27 0.36
41 44 0.59
42 2 0.03
43 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TTGCGAAAGTCAGTACCGCGTTGCGATTTTATAATATCGCA
Found at i:820002 original size:21 final size:20
Alignment explanation
Indices: 819978--820030 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
819968 TTTTCCAAAT
819978 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
**
819999 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
820020 TCGCATTGCGA
1 TCGCATTGCGA
820031 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:820472 original size:60 final size:60
Alignment explanation
Indices: 820350--820473 Score: 133
Period size: 60 Copynumber: 2.1 Consensus size: 60
820340 GTTGCTAATT
* * * * * * *
820350 TTTTAAATATTTTAATTTCATCTCTAAATTATTACTATCGTTTTAAATTAGTTCTTAAAC
1 TTTTAAATATTTTAATTTCATCCCCAAACTATGACTATCATTTTAAATTAGTCCTCAAAC
** * *
820410 TTTTAAATATTTTAATTTCATCCCCCGACTATGACT-TACATTTTAAATTGGTCCTCATAC
1 TTTTAAATATTTTAATTTCATCCCCAAACTATGACTAT-CATTTTAAATTAGTCCTCAAAC
820470 TTTT
1 TTTT
820474 TGAGCATTCC
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 1 0.02
60 51 0.98
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (60 bp):
TTTTAAATATTTTAATTTCATCCCCAAACTATGACTATCATTTTAAATTAGTCCTCAAAC
Found at i:823356 original size:55 final size:55
Alignment explanation
Indices: 823272--823702 Score: 445
Period size: 55 Copynumber: 7.9 Consensus size: 55
823262 TGACGAGTCC
**
823272 GCTCCCTATTTGTTCATG-GAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
1 GCTCCCTATTCATTCA-GAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* **
823327 GCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGTGTCT
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* * *
823382 GCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGGTCT
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* *
823437 GCTCCCTATTCATTCATG-GAGTAT-AGAACTCGAACAATCTTCATA-AAACGAGTCC
1 GCTCCCTATTCATTCA-GAGAGTATAAG-ACTCGAACAATCTTCA-ACAAACGTGTCT
* * * *
823492 GCTCTCTATTCCTTCAGAGAGTATAAAACTCGAACAATCTTCATA-AAACGGGT-T
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAAACGTGTCT
* * ** *
823546 CGCTCTCTATTCATTTAGAGAGTAT-AGAACTCGAACAATCTTCAACAAATATGTCC
1 -GCTCCCTATTCATTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAACGTGTCT
* ** * * ** *
823602 GCTCCCTATTTC-TTCAAAGAGTATGGGACTTGAACAATCTTCAACGAATTTGTCC
1 GCTCCCTA-TTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* *
823657 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACG
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACG
823703 AGTTTGCTTC
Statistics
Matches: 331, Mismatches: 32, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
51 13 0.04
54 9 0.03
55 302 0.91
56 7 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (55 bp):
GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
Found at i:823558 original size:165 final size:164
Alignment explanation
Indices: 823268--823681 Score: 505
Period size: 165 Copynumber: 2.5 Consensus size: 164
823258 CGAATGACGA
* *
823268 GTCCGCTCCCTATTTGTTCATGGAGTATA-AGACTCGAACAATCTTCAACAAACGTGTCTGCTCC
1 GTCCGCTCCCTA-TTCTTCATGGAGTATAGA-ACTCGAACAATCTTCAACAAACGTGTCCGCTCC
* * * *
823332 CTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGTGTCTGCTCCCTATTCATTC
64 CTATTCCTTCAGAGAGTATAAAACTCGAACAATCTTCAGTAAACGGGTCTGCTCCCTATTCATTC
* * *
823397 AGGGAGTATA-AGACTCGAACAATCTTCAATAAACGG
129 AGAGAGTATAGA-ACTCGAACAATCTTCAACAAACAG
* * *
823433 GTCTGCTCCCTATTCATTCATGGAGTATAGAACTCGAACAATCTTCATA-AAACGAGTCCGCTCT
1 GTCCGCTCCCTATTC-TTCATGGAGTATAGAACTCGAACAATCTTCA-ACAAACGTGTCCGCTCC
*
823497 CTATTCCTTCAGAGAGTATAAAACTCGAACAATCTTCA-TAAAACGGGT-TCGCTCTCTATTCAT
64 CTATTCCTTCAGAGAGTATAAAACTCGAACAATCTTCAGT-AAACGGGTCT-GCTCCCTATTCAT
* * *
823560 TTAGAGAGTATAGAACTCGAACAATCTTCAACAAATAT
127 TCAGAGAGTATAGAACTCGAACAATCTTCAACAAACAG
** * * * * **
823598 GTCCGCTCCCTATTTCTTCAAAGAGTATGGGACTTGAACAATCTTCAACGAATTTGTCCGCTCCC
1 GTCCGCTCCCTA-TTCTTCATGGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
823663 TATTCCTTCAGAGAGTATA
65 TATTCCTTCAGAGAGTATA
823682 GGACTCAATC
Statistics
Matches: 214, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
164 5 0.02
165 203 0.95
166 6 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (164 bp):
GTCCGCTCCCTATTCTTCATGGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCGCTCCCT
ATTCCTTCAGAGAGTATAAAACTCGAACAATCTTCAGTAAACGGGTCTGCTCCCTATTCATTCAG
AGAGTATAGAACTCGAACAATCTTCAACAAACAG
Found at i:825054 original size:45 final size:45
Alignment explanation
Indices: 824969--825054 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
824959 TAAACAAAAC
* ** *
824969 TCAAGTCGCCCTTTGCGGGTTTTCAACTTGAGACCTCCTTTGGTT
1 TCAAGACGCCCTTTGCGAATTTTCAACTTGAGACCCCCTTTGGTT
*
825014 TCAAGACGCCCTTTGCGAATTTTCATCTTGA-ATCCCCCTTT
1 TCAAGACGCCCTTTGCGAATTTTCAACTTGAGA-CCCCCTTT
825055 TATTTCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 34 0.97
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.37
Consensus pattern (45 bp):
TCAAGACGCCCTTTGCGAATTTTCAACTTGAGACCCCCTTTGGTT
Found at i:825104 original size:7 final size:7
Alignment explanation
Indices: 825090--825177 Score: 56
Period size: 7 Copynumber: 12.4 Consensus size: 7
825080 TTTTTATTTT
825090 TTTC-TC
1 TTTCTTC
825096 TTTCTTC
1 TTTCTTC
825103 TTTCTTC
1 TTTCTTC
*
825110 TTTTTTC
1 TTTCTTC
*
825117 ATTTTTTC
1 -TTTCTTC
*
825125 TTTTCTTT
1 -TTTCTTC
825133 TTTCTTC
1 TTTCTTC
*
825140 TTTTTTC
1 TTTCTTC
*
825147 ATTTTTTC
1 -TTTCTTC
*
825155 ATTTTTTC
1 -TTTCTTC
*
825163 ATT-TTC
1 TTTCTTC
825169 TTT-TTC
1 TTTCTTC
825175 TTT
1 TTT
825178 TCATTTTTTC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
6 15 0.21
7 29 0.41
8 27 0.38
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTCTTC
Found at i:825122 original size:30 final size:30
Alignment explanation
Indices: 825087--825267 Score: 150
Period size: 30 Copynumber: 6.2 Consensus size: 30
825077 ATATTTTTAT
*
825087 TTTTTTCTCTTTCTTCTTTCTTCTTTTTTCA
1 TTTTTTC-ATTTCTTCTTTCTTCTTTTTTCA
* *
825118 TTTTTTCTTTTCTTTTTTCTTCTTTTTTCA
1 TTTTTTCATTTCTTCTTTCTTCTTTTTTCA
* *
825148 TTTTTTCATTTTTTCATTTTCTTTTTCTTTTCA
1 TTTTTTCATTTCTTC--TTTCTTCTT-TTTTCA
825181 TTTTTTCATTTC-T-TTTCTTCATTTTTT--
1 TTTTTTCATTTCTTCTTTCTTC-TTTTTTCA
*
825208 TCTTTT--TTTCTT-TTTC-T-TTTTTTCA
1 TTTTTTCATTTCTTCTTTCTTCTTTTTTCA
* * *
825233 TTTTTCCTTTTCTTCCTTT-TT-TATTTTCA
1 TTTTTTCATTTCTT-CTTTCTTCTTTTTTCA
825262 TTTTTT
1 TTTTTT
825268 TCCATCATTT
Statistics
Matches: 125, Mismatches: 13, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
23 6 0.05
25 9 0.07
26 5 0.04
27 11 0.09
29 26 0.21
30 35 0.28
31 7 0.06
32 9 0.07
33 17 0.14
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTTTTCATTTCTTCTTTCTTCTTTTTTCA
Found at i:825123 original size:8 final size:8
Alignment explanation
Indices: 825110--825267 Score: 103
Period size: 8 Copynumber: 20.8 Consensus size: 8
825100 TTCTTTCTTC
825110 TTTTTTCA
1 TTTTTTCA
825118 TTTTTTC-
1 TTTTTTCA
825125 TTTTCTT--
1 TTTT-TTCA
825132 TTTTCTTC-
1 TTTT-TTCA
825140 TTTTTTCA
1 TTTTTTCA
825148 TTTTTTCA
1 TTTTTTCA
825156 TTTTTTCA
1 TTTTTTCA
*
825164 TTTTCTT-T
1 TTTT-TTCA
825172 TTCTTTTCA
1 TT-TTTTCA
825181 TTTTTTCA
1 TTTTTTCA
825189 ---TTTC-
1 TTTTTTCA
825193 TTTTCTTCA
1 TTTT-TTCA
*
825202 TTTTTTTCT
1 -TTTTTTCA
825211 TTTTTTC-
1 TTTTTTCA
*
825218 -TTTTTCT
1 TTTTTTCA
825225 TTTTTTCA
1 TTTTTTCA
*
825233 -TTTTTCC
1 TTTTTTCA
*
825240 TTTTCTTCC
1 TTTT-TTCA
825249 TTTTTT-A
1 TTTTTTCA
825256 --TTTTCA
1 TTTTTTCA
825262 TTTTTT
1 TTTTTT
825268 TCCATCATTT
Statistics
Matches: 125, Mismatches: 6, Indels: 38
0.74 0.04 0.22
Matches are distributed among these distances:
5 8 0.06
6 7 0.06
7 21 0.17
8 68 0.54
9 17 0.14
10 4 0.03
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:825152 original size:38 final size:37
Alignment explanation
Indices: 825051--825267 Score: 164
Period size: 37 Copynumber: 5.8 Consensus size: 37
825041 TTGAATCCCC
* * *
825051 CTTTTATTTCTTTTTCCTTTTTCATTATATTT--TTATTT
1 CTTTTCTTT-TTTTTCTTTTTTCATT-T-TTTCATTTTTT
* * *
825089 -TTTTCTCTTTCTTCTTTCTTC-TTTTTTCATTTTTT
1 CTTTTCTTTTTTTTCTTTTTTCATTTTTTCATTTTTT
825124 CTTTTCTTTTTTCTTCTTTTTTCATTTTTTCATTTTTT
1 CTTTTCTTTTTT-TTCTTTTTTCATTTTTTCATTTTTT
*
825162 CATTTTCTTTTTCTTTTCATTTTTTCATTTCTTTTC-TTCATTT
1 C-TTTTC-TTTT-TTTTC-TTTTTTCA-TT-TTTTCATT-TTTT
* *
825205 -TTTTC-TTTTTTTC-TTTTTCTTTTTTTCATTTTTC
1 CTTTTCTTTTTTTTCTTTTTTCATTTTTTCATTTTTT
* *
825239 CTTTTCTTCCTTTTT-TATTTTCATTTTTT
1 CTTTTCTT-TTTTTTCTTTTTTCATTTTTT
825268 TCCATCATTT
Statistics
Matches: 146, Mismatches: 16, Indels: 35
0.74 0.08 0.18
Matches are distributed among these distances:
33 3 0.02
34 8 0.05
35 16 0.11
36 26 0.18
37 31 0.21
38 20 0.14
39 8 0.05
40 7 0.05
41 15 0.10
42 4 0.03
43 8 0.05
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (37 bp):
CTTTTCTTTTTTTTCTTTTTTCATTTTTTCATTTTTT
Found at i:825285 original size:63 final size:60
Alignment explanation
Indices: 825078--825288 Score: 197
Period size: 60 Copynumber: 3.5 Consensus size: 60
825068 TTTTTCATTA
* * *
825078 TATTTTTATTTTTTTCTCTTTCTTCTTTCTTCTTTTTTCATTTTTTCTTTTCTT-TTTTCTT
1 TATTTTCATTTTTTTCTCTTT-TTCTTT-TTCTTTTTTCATTTTTCCTTTTCTTCATTTCTT
* * *
825139 CTTTTTTCA-TTTTTTCAT-TTTTTCATTTTC-TTTTTC--TTTTCATTTT-TTCATTTCTT
1 -TATTTTCATTTTTTTC-TCTTTTTCTTTTTCTTTTTTCATTTTTCCTTTTCTTCATTTCTT
* * *
825195 T-TCTTCATTTTTTTCTTTTTTTCTTTTTCTTTTTTTCATTTTTCCTTTTCTTCCTTT-TT
1 TATTTTCATTTTTTTCTCTTTTTCTTTTTC-TTTTTTCATTTTTCCTTTTCTTCATTTCTT
*
825254 TATTTTCATTTTTTTCCATCATTTTCATTTTTCTT
1 TATTTTCATTTTTTT-C-TCTTTTTC-TTTTTCTT
825289 CAGGTGAAAT
Statistics
Matches: 123, Mismatches: 13, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
54 6 0.05
55 21 0.17
56 14 0.11
57 6 0.05
58 6 0.05
59 15 0.12
60 23 0.19
61 11 0.09
62 15 0.12
63 6 0.05
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (60 bp):
TATTTTCATTTTTTTCTCTTTTTCTTTTTCTTTTTTCATTTTTCCTTTTCTTCATTTCTT
Found at i:834936 original size:45 final size:45
Alignment explanation
Indices: 834869--834994 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
834859 TGTTATTCAC
* * * *
834869 AAAAATAAATCCTAACCACATGATATCTAATTTGCATTCTTGTTCG
1 AAAAATAAA-CCTAAACGCATGATATCTAATTCGCATGCTTGTTCG
*
834915 AAAAATAAACCTAAACGCATGATATCTAGTTCGCATGCTTGTTCG
1 AAAAATAAACCTAAACGCATGATATCTAATTCGCATGCTTGTTCG
* *
834960 AAAAATAAACCTAATCGCATGATATCTAGTTCGCA
1 AAAAATAAACCTAAACGCATGATATCTAATTCGCA
834995 AGCATTTATT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
45 65 0.88
46 9 0.12
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (45 bp):
AAAAATAAACCTAAACGCATGATATCTAATTCGCATGCTTGTTCG
Found at i:838444 original size:60 final size:60
Alignment explanation
Indices: 838366--838480 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
838356 TTGGGGGACC
** * *
838366 AATTTAGAAAGAGGGTCATAGTTT-ATGGATGAAATTAGAATGTTCAAAAGTTTAATGACT
1 AATTTAGAAAGAAAGTCATAGTTTGA-GGATGAAATTAGAATATGCAAAAGTTTAATGACT
*
838426 AATTTAGAATGAAAGTCATAGTTTGAGGATGAAATTAGAATATGCAAAAGTTTAA
1 AATTTAGAAAGAAAGTCATAGTTTGAGGATGAAATTAGAATATGCAAAAGTTTAA
838481 GGATCAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 48 0.98
61 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (60 bp):
AATTTAGAAAGAAAGTCATAGTTTGAGGATGAAATTAGAATATGCAAAAGTTTAATGACT
Found at i:838483 original size:29 final size:29
Alignment explanation
Indices: 838385--838484 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 29
838375 AGAGGGTCAT
* * *
838385 AGTTTATGGATGAAATTAGAATGTTCAAA
1 AGTTTAAGGATGAAATTAGAATATGCAAA
* * * *
838414 AGTTTAATGACT-AATTTAGAATGAAAGTC-AT
1 AGTTTAAGGA-TGAAATTAGAAT--ATG-CAAA
*
838445 AGTTTGAGGATGAAATTAGAATATGCAAA
1 AGTTTAAGGATGAAATTAGAATATGCAAA
838474 AGTTTAAGGAT
1 AGTTTAAGGAT
838485 CAATATAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 12
0.68 0.17 0.16
Matches are distributed among these distances:
28 1 0.02
29 30 0.58
30 2 0.04
31 18 0.35
32 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (29 bp):
AGTTTAAGGATGAAATTAGAATATGCAAA
Found at i:838507 original size:60 final size:59
Alignment explanation
Indices: 838380--838513 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 59
838370 TAGAAAGAGG
* * * * *
838380 GTCATAGTTTATGGATGAAATTAGAATGTTCAAAAGTTTAATGACTAATTTAGAATGAAA
1 GTCATAGTTTA-GGATGAAATTAGAATATGCAAAAGTTTAAGGACTAATATAAAATGAAA
*
838440 GTCATAGTTTGAGGATGAAATTAGAATATGCAAAAGTTTAAGGA-TCAATATAAAAT-TAA
1 GTCATAGTTT-AGGATGAAATTAGAATATGCAAAAGTTTAAGGACT-AATATAAAATGAAA
*
838499 GATTATAGTTTAGGA
1 G-TCATAGTTTAGGA
838514 AAATATAATG
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 8 0.12
60 55 0.86
61 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (59 bp):
GTCATAGTTTAGGATGAAATTAGAATATGCAAAAGTTTAAGGACTAATATAAAATGAAA
Found at i:839991 original size:187 final size:183
Alignment explanation
Indices: 839628--839999 Score: 692
Period size: 187 Copynumber: 2.0 Consensus size: 183
839618 ATCTTTTTGG
839628 GTTAGGTAGGTCAATACCTAAAAATCTTTAAAATAGTTTTTAAGAAAACATAATTTAAATTGATA
1 GTTAGGTAGGTCAATACCTAAAAATCTTTAAAATAGTTTTTAAGAAAACATAATTTAAATTGATA
839693 TGCGTATAAACCAAAAATTCGTTCTTTATAATAAAAAAGGGATTCGTGGTCGATTTACGTTTGAG
66 TGCGTATAAACCAAAAATTCGTTCTTTATAATAAAAAAGGGATTCGTGGTCGATTTACGTTTGAG
839758 GAAAGATTAGCACCCCACAACGCCCAAAATTGGTACTTCATTAATTATAATTT
131 GAAAGATTAGCACCCCACAACGCCCAAAATTGGTACTTCATTAATTATAATTT
839811 GTTAGGTAGGTCAATACCTAAAAATCTTTTAAAATAGTTTTTAAGAAAACATAATTTAAATTGAT
1 GTTAGGTAGGTCAATACCTAAAAATC-TTTAAAATAGTTTTTAAGAAAACATAATTTAAATTGAT
839876 ATGCGTATAAACCAAAAATTCGTTCTTTTTTATAATAAAAAAGGGATTCGTGGTCGA-TTACGTT
65 ATGCGTATAAACCAAAAATTCGTTC---TTTATAATAAAAAAGGGATTCGTGGTCGATTTACGTT
839940 TGAGGAAAGATTAGCACCCCCACAACGCCCAAAATTGGTACTTCATTAATTATAATTT
127 TGAGGAAAGATTAGCA-CCCCACAACGCCCAAAATTGGTACTTCATTAATTATAATTT
839998 GT
1 GT
840000 CTCTATTATT
Statistics
Matches: 184, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
183 26 0.14
184 63 0.34
186 23 0.12
187 72 0.39
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (183 bp):
GTTAGGTAGGTCAATACCTAAAAATCTTTAAAATAGTTTTTAAGAAAACATAATTTAAATTGATA
TGCGTATAAACCAAAAATTCGTTCTTTATAATAAAAAAGGGATTCGTGGTCGATTTACGTTTGAG
GAAAGATTAGCACCCCACAACGCCCAAAATTGGTACTTCATTAATTATAATTT
Found at i:841904 original size:113 final size:117
Alignment explanation
Indices: 841657--842226 Score: 679
Period size: 124 Copynumber: 4.8 Consensus size: 117
841647 TCTTTCCGTA
* *
841657 ATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGT
1 ATAGAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGA
841722 GTTCTTCTCATTATGAAC--TCTCTGGAAAA--G-TTG-A-TCCATCGAGTG
66 GTTCTTCTCATTATGAACTTTCTCTGGAAAAGTGATTGTACTCCATCGAGTG
* * *
841767 AT-GAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATG
1 ATAG-AGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
*
841831 AGTTCTTCTCATTATGAAC-TTCTACCTGG-CAA-TGA-TG-A-TCCATCGAGTG
65 AGTTCTTCTCATTATGAACTTTCT--CTGGAAAAGTGATTGTACTCCATCGAGTG
* * **
841880 AT-GAATTGAAGCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGAT
1 ATAG-AGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CCTCTTCAGAT
*
841944 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCG-GTG
64 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG-TGA--TTG---TA-CTCCATCGAGTG
*
842004 ATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTGCTTCAGATG
1 ATAGAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT-CTTCAGATG
* * *
842069 AGTTCTTCTTATTATGAACTTTCTCTGGAAAAGTTGATACTGGTCTATCTCCTTC-TGTG
65 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAG-TGAT--T-G--TA-CTCCATCGAGTG
*
842128 ATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 ATAGAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATG
*
842193 AGTTCTTCTTATTATGAACTTTCTCTGGAAAAGT
65 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGT
842227 TGATCCATCA
Statistics
Matches: 416, Mismatches: 17, Indels: 41
0.88 0.04 0.09
Matches are distributed among these distances:
109 1 0.00
110 76 0.18
111 3 0.01
112 2 0.00
113 72 0.17
114 33 0.08
115 4 0.01
116 3 0.01
119 2 0.00
122 1 0.00
123 5 0.01
124 205 0.49
125 9 0.02
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (117 bp):
ATAGAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGA
GTTCTTCTCATTATGAACTTTCTCTGGAAAAGTGATTGTACTCCATCGAGTG
Found at i:842630 original size:22 final size:22
Alignment explanation
Indices: 842605--842684 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 22
842595 AATAAAGCTT
842605 TCATCTTTGAAAAGAGAACCTA
1 TCATCTTTGAAAAGAGAACCTA
*
842627 TCATCTTT--AAAGAGATATGCTA
1 TCATCTTTGAAAAGAGA-A-CCTA
*
842649 TCATCTTTGAAGAA-AGAATCTA
1 TCATCTTTGAA-AAGAGAACCTA
842671 TCATCTTTGAAAAG
1 TCATCTTTGAAAAG
842685 TGTAGATGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
20 7 0.14
21 3 0.06
22 33 0.66
23 1 0.02
24 4 0.08
25 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAACCTA
Found at i:842964 original size:54 final size:54
Alignment explanation
Indices: 842871--842974 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
842861 TCTTGTTGTA
* * *
842871 AAACATTTGACAACACATTCATCATTTCTTGTGATTTCTGCACAAATGTTTCGT
1 AAACATTTAACAACACATTCATCATTTCCTGTGACTTCTGCACAAATGTTTCGT
* * * * *
842925 AAACATTTAACAATACATTCATTATTTCCTGTGGCTTCTGCCCAGATGTT
1 AAACATTTAACAACACATTCATCATTTCCTGTGACTTCTGCACAAATGTT
842975 CTCAATCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (54 bp):
AAACATTTAACAACACATTCATCATTTCCTGTGACTTCTGCACAAATGTTTCGT
Found at i:850666 original size:57 final size:59
Alignment explanation
Indices: 850581--850698 Score: 213
Period size: 57 Copynumber: 2.0 Consensus size: 59
850571 TCGTTTGTAA
850581 TCTTTAGATGACGTATTTGAGGCTCAGACCTCAGCAAATTTTCTTCTTTCTGGGTGCCCT
1 TCTTTAGATGA-GTATTTGAGGCTCAGACCTCAGCAAATTTTCTTCTTTCTGGGTGCCCT
850641 TCTTTAGATG-GTA-TTGAGGCTCAGACCTCAGCAAATTTTCTTCTTTCTGGGTGCCCT
1 TCTTTAGATGAGTATTTGAGGCTCAGACCTCAGCAAATTTTCTTCTTTCTGGGTGCCCT
850698 T
1 T
850699 ACTGATATTC
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
57 45 0.78
58 3 0.05
60 10 0.17
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (59 bp):
TCTTTAGATGAGTATTTGAGGCTCAGACCTCAGCAAATTTTCTTCTTTCTGGGTGCCCT
Done.