Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 85 of 141
Found at i:27777850 original size:9 final size:9
Alignment explanation
Indices: 27777836--27777911 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
27777826 TTTGGTTAAA
27777836 AATTAACCG
1 AATTAACCG
*
27777845 AATTAACCT
1 AATTAACCG
*
27777854 AATTAACCA
1 AATTAACCG
*
27777863 AATTACCCG
1 AATTAACCG
*
27777872 AATTAACTG
1 AATTAACCG
* *
27777881 ATTTACCCG
1 AATTAACCG
*
27777890 AATTACCCG
1 AATTAACCG
27777899 AATTAACCG
1 AATTAACCG
27777908 AATT
1 AATT
27777912 GAATCACTAC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:27778034 original size:18 final size:18
Alignment explanation
Indices: 27778008--27778057 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
27777998 TTTATGATTA
* *
27778008 GGTTGGGTTGGGTAATTG
1 GGTTTGGTTGGATAATTG
* *
27778026 GGTTTGGTTGAATACTTG
1 GGTTTGGTTGGATAATTG
27778044 GGTTTGGATTGGAT
1 GGTTTGG-TTGGAT
27778058 TTAGGTGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.14, C:0.02, G:0.42, T:0.42
Consensus pattern (18 bp):
GGTTTGGTTGGATAATTG
Found at i:27780929 original size:25 final size:25
Alignment explanation
Indices: 27780901--27781017 Score: 110
Period size: 25 Copynumber: 4.7 Consensus size: 25
27780891 CTCCGATCTG
* *
27780901 AATAACAAGAAGCTCATGCAAGCTA
1 AATAACGAGAAGCTCATGCGAGCTA
* * *
27780926 AATAACGGGAAGCTCAAGCGAGCTG
1 AATAACGAGAAGCTCATGCGAGCTA
* * *
27780951 AATATCGAGAAGCTCATACGAGCTG
1 AATAACGAGAAGCTCATGCGAGCTA
* *
27780976 TATAACGGGAAGCTCATGCGAGCTA
1 AATAACGAGAAGCTCATGCGAGCTA
* *
27781001 TAA-ATCGGGAAGCTCAT
1 -AATAACGAGAAGCTCAT
27781018 ATGAGCTGTG
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
25 74 0.99
26 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
AATAACGAGAAGCTCATGCGAGCTA
Found at i:27780997 original size:50 final size:50
Alignment explanation
Indices: 27780863--27781026 Score: 161
Period size: 50 Copynumber: 3.3 Consensus size: 50
27780853 GTACATGTAT
* * * * * * * *
27780863 GCTCACACGAGTTGTA-AACGGAAAGCTCCTCCGATCTGAATAACAAGAA
1 GCTCATACGAGCTGTATAACGGGAAGCTCATGCGAGCTGAATATCGAGAA
* * ** *
27780912 GCTCATGCAAGCTAAATAACGGGAAGCTCAAGCGAGCTGAATATCGAGAA
1 GCTCATACGAGCTGTATAACGGGAAGCTCATGCGAGCTGAATATCGAGAA
* *
27780962 GCTCATACGAGCTGTATAACGGGAAGCTCATGCGAGCT-ATAAATCGGGAA
1 GCTCATACGAGCTGTATAACGGGAAGCTCATGCGAGCTGA-ATATCGAGAA
*
27781012 GCTCATATGAGCTGT
1 GCTCATACGAGCTGT
27781027 GGTGTGTCCA
Statistics
Matches: 92, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 11 0.12
50 81 0.88
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (50 bp):
GCTCATACGAGCTGTATAACGGGAAGCTCATGCGAGCTGAATATCGAGAA
Found at i:27781373 original size:17 final size:17
Alignment explanation
Indices: 27781351--27781384 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27781341 GATCTTACTC
27781351 TAAATTAATAATTTTAT
1 TAAATTAATAATTTTAT
* *
27781368 TAAATTTATTATTTTAT
1 TAAATTAATAATTTTAT
27781385 ACAATAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAATTAATAATTTTAT
Found at i:27784754 original size:24 final size:24
Alignment explanation
Indices: 27784690--27784759 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
27784680 TTCGTTATAA
*
27784690 TTAACTTTTCACCTTTCATCTTCC
1 TTAACTTTTCACCTTTTATCTTCC
* **
27784714 TTAACTTTTCACTTTTTATCTTTT
1 TTAACTTTTCACCTTTTATCTTCC
*
27784738 TTAACTCTTCACCTTTTTATCT
1 TTAACTTTTCACC-TTTTATCT
27784760 CATTGTATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 31 0.79
25 8 0.21
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAACTTTTCACCTTTTATCTTCC
Found at i:27784940 original size:7 final size:7
Alignment explanation
Indices: 27784928--27784959 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
27784918 ATTAATTTAC
27784928 ATTTAAT
1 ATTTAAT
27784935 ATTTAAT
1 ATTTAAT
27784942 ATTTAAT
1 ATTTAAT
27784949 ATTTAAT
1 ATTTAAT
27784956 ATTT
1 ATTT
27784960 TTTTTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTTAAT
Found at i:27792102 original size:203 final size:204
Alignment explanation
Indices: 27791744--27792154 Score: 815
Period size: 203 Copynumber: 2.0 Consensus size: 204
27791734 ACATATTTAA
27791744 ATAAAAATAAAAATTTGCTAAATGGTTTTTATATATATATTTATAATTTTTGACTGATCAATGTC
1 ATAAAAATAAAAATTTGCTAAATGGTTTTTATATATATATTTATAATTTTTGACTGATCAATGTC
27791809 TAGTCAATATAGATTAACATCGATCAACGTAGAGTTAACGTGTCATGTCATCATTAGTTGAGTTT
66 TAGTCAATATAGATTAACATCGATCAACGTAGAGTTAACGTGTCATGTCATCATTAGTTGAGTTT
27791874 TTTCTTAACGCCCTTAGTTGTTAAGCACTAAAATAATAACAGACAAAGTTTAAATATCAAAATAA
131 TTTCTTAACGCCCTTAGTTGTTAAGCACTAAAATAATAACAGACAAAGTTTAAATATCAAAATAA
27791939 GAAAACGAT
196 GAAAACGAT
27791948 ATAAAAAT-AAAATTTGCTAAATGGTTTTTATATATATATTTATAATTTTTGACTGATCAATGTC
1 ATAAAAATAAAAATTTGCTAAATGGTTTTTATATATATATTTATAATTTTTGACTGATCAATGTC
27792012 TAGTCAATATAGATTAACATCGATCAACGTAGAGTTAACGTGTCATGTCATCATTAGTTGAGTTT
66 TAGTCAATATAGATTAACATCGATCAACGTAGAGTTAACGTGTCATGTCATCATTAGTTGAGTTT
27792077 TTTCTTAACGCCCTTAGTTGTTAAGCACTAAAATAATAACAGACAAAGTTTAAATATCAAAATAA
131 TTTCTTAACGCCCTTAGTTGTTAAGCACTAAAATAATAACAGACAAAGTTTAAATATCAAAATAA
27792142 GAAAACGAT
196 GAAAACGAT
27792151 ATAA
1 ATAA
27792155 TTAAGGACTA
Statistics
Matches: 207, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
203 199 0.96
204 8 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (204 bp):
ATAAAAATAAAAATTTGCTAAATGGTTTTTATATATATATTTATAATTTTTGACTGATCAATGTC
TAGTCAATATAGATTAACATCGATCAACGTAGAGTTAACGTGTCATGTCATCATTAGTTGAGTTT
TTTCTTAACGCCCTTAGTTGTTAAGCACTAAAATAATAACAGACAAAGTTTAAATATCAAAATAA
GAAAACGAT
Found at i:27792394 original size:26 final size:26
Alignment explanation
Indices: 27792362--27792411 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
27792352 ATACTAATAA
27792362 TTATATTT-T-ATTCAAACTGAAAATTG
1 TTATATTTATAATT-AAACT-AAAATTG
27792388 TTATATTTATAATTAAACTAAAAT
1 TTATATTTATAATTAAACTAAAAT
27792412 CAAAATTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 13 0.59
27 6 0.27
28 3 0.14
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (26 bp):
TTATATTTATAATTAAACTAAAATTG
Found at i:27797387 original size:26 final size:24
Alignment explanation
Indices: 27797320--27797387 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
27797310 ATTTAAATAA
*
27797320 AAATAATTTAAATATT--TTATTT
1 AAATAATTTAAATATTAATTAATT
* *
27797342 AAATAATTAAAATAACTAATTAATT
1 AAATAATTTAAAT-ATTAATTAATT
27797367 AACATAATATTAAATATTAAT
1 AA-ATAAT-TTAAATATTAAT
27797388 AAAAATGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 12 0.33
23 2 0.06
25 7 0.19
26 10 0.28
27 5 0.14
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATAATTTAAATATTAATTAATT
Found at i:27804822 original size:3 final size:3
Alignment explanation
Indices: 27804814--27804842 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27804804 AAATTAGTCT
27804814 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
27804843 TTGAGACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:27821736 original size:40 final size:40
Alignment explanation
Indices: 27821687--27821774 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
27821677 AAATTAATAT
*
27821687 ATTAGAATGTACTCAAATCCCTCGTTCAATCCAAACTGCGC
1 ATTA-AATGTACTCAAATCCCGCGTTCAATCCAAACTGCGC
27821728 ATTAAATGTACTCAAATCCCGCGTTCAATCCAAACTGCGC
1 ATTAAATGTACTCAAATCCCGCGTTCAATCCAAACTGCGC
27821768 ATTAAAT
1 ATTAAAT
27821775 TCAATAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.27
Consensus pattern (40 bp):
ATTAAATGTACTCAAATCCCGCGTTCAATCCAAACTGCGC
Found at i:27822679 original size:17 final size:17
Alignment explanation
Indices: 27822654--27822699 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
27822644 CCGCCTCATC
*
27822654 TTTTCATTTAGGCATAA
1 TTTTTATTTAGGCATAA
27822671 TTTTTATTTAGGCATAA
1 TTTTTATTTAGGCATAA
*
27822688 TTTATATTTAGG
1 TTTTTATTTAGG
27822700 TTTTTCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTTTATTTAGGCATAA
Found at i:27823811 original size:28 final size:28
Alignment explanation
Indices: 27823770--27823827 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
27823760 TTCCTACAAT
*
27823770 TTATCTCTTTTCTCTCTG-T-GTTTTCTC
1 TTATCTCTTCTCTCTC-GATAGTTTTCTC
27823797 TTATCGTCTTCTCTCTCGATAGTTTTCTC
1 TTATC-TCTTCTCTCTCGATAGTTTTCTC
27823826 TT
1 TT
27823828 TTGTATTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 6 0.22
28 11 0.41
29 10 0.37
ACGTcount: A:0.07, C:0.26, G:0.09, T:0.59
Consensus pattern (28 bp):
TTATCTCTTCTCTCTCGATAGTTTTCTC
Found at i:27833403 original size:2 final size:2
Alignment explanation
Indices: 27833396--27833422 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27833386 ATCTATATTA
27833396 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27833423 ATAGTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27833462 original size:2 final size:2
Alignment explanation
Indices: 27833457--27833481 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27833447 ACATAACACG
27833457 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27833482 ATAGTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27833464 original size:59 final size:59
Alignment explanation
Indices: 27833398--27833516 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
27833388 CTATATTAAT
* *
27833398 ATATATATATATATATATATATATAATAGTTTAAGAGTTTTTTTTTTTTACATAACACG
1 ATATATATATATATATATATATATAATAGTTTAAGAGTTTTTTTCTTTTACATAAAACG
27833457 ATATATATATATATATATATATATAATAGTTTAAGAGTTTTTTTCTTTTACATAAAACG
1 ATATATATATATATATATATATATAATAGTTTAAGAGTTTTTTTCTTTTACATAAAACG
27833516 A
1 A
27833517 AAAATTAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (59 bp):
ATATATATATATATATATATATATAATAGTTTAAGAGTTTTTTTCTTTTACATAAAACG
Found at i:27837364 original size:18 final size:17
Alignment explanation
Indices: 27837336--27837370 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27837326 NNNNNNNAGA
*
27837336 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27837353 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27837371 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27837623 original size:16 final size:16
Alignment explanation
Indices: 27837604--27837673 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
27837594 TTGATTTGCT
* *
27837604 ATTACACCTCTATTCT
1 ATTACACCTCTAATCC
27837620 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
27837636 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
27837652 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
27837668 AATACA
1 ATTACA
27837674 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:27837624 original size:45 final size:44
Alignment explanation
Indices: 27837528--27837625 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 44
27837518 CTATTACACC
* * *
27837528 TCTATTCCATTCAACCAAACACAAGATTACTATTACGCCTTTAT
1 TCTATTACATTCAACCAAACACAAGATTACTATTACACCTCTAT
* *** *
27837572 TCCATTACATTCAACCAAACATTTGATTTGCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACACAAGA-TTACTATTACACCTCTAT
27837617 TCTATTACA
1 TCTATTACA
27837626 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 21 0.48
45 23 0.52
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (44 bp):
TCTATTACATTCAACCAAACACAAGATTACTATTACACCTCTAT
Found at i:27846039 original size:32 final size:32
Alignment explanation
Indices: 27845998--27846065 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
27845988 TTTGCATGGT
27845998 TAACACAAACATTTCTAGGAATAAAGGAGAAA
1 TAACACAAACATTTCTAGGAATAAAGGAGAAA
27846030 TAACACAAACATTTCTAGGAATAAAGGAGAAA
1 TAACACAAACATTTCTAGGAATAAAGGAGAAA
27846062 TAAC
1 TAAC
27846066 CTTACTCTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (32 bp):
TAACACAAACATTTCTAGGAATAAAGGAGAAA
Found at i:27848218 original size:35 final size:35
Alignment explanation
Indices: 27848177--27848246 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
27848167 ATTAAACATA
*
27848177 GTCTTTTGAACAAATAAAATGATGAAATAATAATG
1 GTCTTTTGAACAAATAAAACGATGAAATAATAATG
27848212 GTCTTTTGAACAAATAAAACGATGAAATAATAATG
1 GTCTTTTGAACAAATAAAACGATGAAATAATAATG
27848247 TAGAATGCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (35 bp):
GTCTTTTGAACAAATAAAACGATGAAATAATAATG
Found at i:27848859 original size:19 final size:18
Alignment explanation
Indices: 27848824--27848874 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
27848814 AAATTTAATC
* *
27848824 AAAT-ATAATAATGATAA
1 AAATAATAATAGTAATAA
*
27848841 CAATAATAAATAGTAATAA
1 AAATAAT-AATAGTAATAA
27848860 AAATAATAATAGTAA
1 AAATAATAATAGTAA
27848875 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATAATAATAGTAATAA
Found at i:27848865 original size:25 final size:24
Alignment explanation
Indices: 27848819--27848880 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
27848809 AATAGAAATT
**
27848819 TAATCAAATATAATAATGATAACAA
1 TAAT-AAATATAATAAAAATAACAA
*
27848844 TAATAAATAGTAATAAAAATAATAA
1 TAATAAATA-TAATAAAAATAACAA
*
27848869 TAGTAAAT-TAAT
1 TAATAAATATAAT
27848881 TAATAGCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 5 0.16
25 23 0.72
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (24 bp):
TAATAAATATAATAAAAATAACAA
Found at i:27851811 original size:9 final size:9
Alignment explanation
Indices: 27851762--27851811 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
27851752 TTTGGTTAAA
*
27851762 AATTAACCA
1 AATTAACCG
*
27851771 AATTAATCG
1 AATTAACCG
27851780 AATTAACCG
1 AATTAACCG
*
27851789 AATTACCCG
1 AATTAACCG
* *
27851798 GATTAATCG
1 AATTAACCG
27851807 AATTA
1 AATTA
27851812 CCCACATTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:27851820 original size:18 final size:18
Alignment explanation
Indices: 27851781--27851822 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27851771 AATTAATCGA
**
27851781 ATTAACCGAATTACCCGG
1 ATTAACCGAATTACCCAC
*
27851799 ATTAATCGAATTACCCAC
1 ATTAACCGAATTACCCAC
27851817 ATTAAC
1 ATTAAC
27851823 TGAAAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (18 bp):
ATTAACCGAATTACCCAC
Found at i:27859908 original size:14 final size:14
Alignment explanation
Indices: 27859885--27859924 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27859875 ACAGAAAAGT
*
27859885 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
27859899 AAATCATTTTACGG
1 AAAACATTTTACAG
27859913 AAAACATTTTAC
1 AAAACATTTTAC
27859925 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:27859909 original size:34 final size:35
Alignment explanation
Indices: 27859850--27859916 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
27859840 CAAACAGCAG
* * *
27859850 AAAATATTTTCTAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
27859885 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
27859917 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:27860605 original size:40 final size:40
Alignment explanation
Indices: 27860555--27860647 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
27860545 GATAAAGCAG
27860555 GAAAACGCTTCCTCAATG-AAGCACTTTGTCCACGTGGACGA
1 GAAAACGCTTCCTCAA-GAAAGCACTTTGTCCACGTGGA-GA
* ** *
27860596 -AAAACGCTTCTTCAAGAAAGCGTTTTGTCCACGTGGATA
1 GAAAACGCTTCCTCAAGAAAGCACTTTGTCCACGTGGAGA
27860635 GAAAACGCTTCCT
1 GAAAACGCTTCCT
27860648 TGAGGTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
GAAAACGCTTCCTCAAGAAAGCACTTTGTCCACGTGGAGA
Found at i:27864797 original size:16 final size:17
Alignment explanation
Indices: 27864773--27864804 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
27864763 TCTATTATAT
27864773 TTTTAAATTATTCCAAG
1 TTTTAAATTATTCCAAG
27864790 TTTT-AATTATTCCAA
1 TTTTAAATTATTCCAA
27864805 CTTATGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTAAATTATTCCAAG
Found at i:27872532 original size:17 final size:17
Alignment explanation
Indices: 27872500--27872550 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
27872490 GTTTTCATGA
* *
27872500 AAAACAAAACAAAAAAT
1 AAAATAAAATAAAAAAT
*
27872517 ATAATAAAAAATAAAAAAT
1 A-AA-ATAAAATAAAAAAT
27872536 AAAATAAAATAAAAA
1 AAAATAAAATAAAAA
27872551 GTTCTGAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.41
18 4 0.14
19 13 0.45
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:27872532 original size:19 final size:19
Alignment explanation
Indices: 27872505--27872544 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
27872495 CATGAAAAAC
*
27872505 AAAACAAAAAATATAATAA
1 AAAACAAAAAATAAAATAA
*
27872524 AAAATAAAAAATAAAATAA
1 AAAACAAAAAATAAAATAA
27872543 AA
1 AA
27872545 TAAAAAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAACAAAAAATAAAATAA
Found at i:27872532 original size:24 final size:24
Alignment explanation
Indices: 27872499--27872550 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
27872489 TGTTTTCATG
*
27872499 AAAAACAAAACAA-AAAATATAATA
1 AAAAACAAAA-AATAAAATAAAATA
*
27872523 AAAAATAAAAAATAAAATAAAATA
1 AAAAACAAAAAATAAAATAAAATA
27872547 AAAA
1 AAAA
27872551 GTTCTGAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (24 bp):
AAAAACAAAAAATAAAATAAAATA
Found at i:27875120 original size:455 final size:455
Alignment explanation
Indices: 27874258--27875132 Score: 1581
Period size: 455 Copynumber: 1.9 Consensus size: 455
27874248 GTCAGGGTCA
*
27874258 CAGATATTTTGGCCTAATATGTAATTTTATTTTTCTCACCAAAGTTTATCTCTCCAAATTCTGCT
1 CAGATATTTTAGCCTAATATGTAATTTTATTTTTCTCACCAAAGTTTATCTCTCCAAATTCTGCT
27874323 TGGAATTAAAAGGACAAATATTAAATTGAGGTTAATGACTCATTTAATTCAAAAGTTAATGACTC
66 TGGAATTAAAAGGACAAATATTAAATTGAGGTTAATGACTCATTTAATTCAAAAGTTAATGACTC
* *
27874388 CTTAATTCACAGATGTTATTAGCTCCATTAGTCAAAATTTCTAAAAGTTCTTTTAATTTTTGAAT
131 CTCAATTCACAAATGTTATTAGCTCCATTAGTCAAAATTTCTAAAAGTTCTTTTAATTTTTGAAT
*
27874453 TTTCTTTAAAACCAAATAATTTGCAGGAAAAGATATACAAACTAAAATTTCAGATATTTCAAGAT
196 TTTCTTTAAAACCAAATAATTTGCAGGAAAAGATATACAAACTAAAATTTCAGAAATTTCAAGAT
* *
27874518 CTTTTCCCTGCATATTTCGAACCTATTTTCAGTGATAGAATAAGGTAAGGCTACAGTTCGTTGAT
261 CTTTTCCCTGCATATTTCGAACCTATTTTCAGTGATAGAAGAAAGTAAGGCTACAGTTCGTTGAT
*
27874583 CACTGTAGCCGTGCTACTGCCGTGCTCATCTCATTGTTGTATCTTGGGAGACAGTCGACCAACAT
326 CACTATAGCCGTGCTACTGCCGTGCTCATCTCATTGTTGTATCTTGGGAGACAGTCGACCAACAT
*
27874648 TTCTCCAGCAGCAAAGGAGCGACCGAATCTATGAAAATAGGTTATTTTATTTTATTTTAGGTTTG
391 TTCTCCAGCACCAAAGGAGCGACCGAATCTATGAAAATAGGTTATTTTATTTTATTTTAGGTTTG
* * *
27874713 CAGATATTTTAGCCTAATATGTACTTTTATTTTTCTCACCAGAGTTTATCTCTTCAAATTCTGCT
1 CAGATATTTTAGCCTAATATGTAATTTTATTTTTCTCACCAAAGTTTATCTCTCCAAATTCTGCT
*
27874778 TGGAATTAAAAGGACAAATATTAAATTGAGGTTAATGGCTCATTTAATTCAAAAGTTAATGACTC
66 TGGAATTAAAAGGACAAATATTAAATTGAGGTTAATGACTCATTTAATTCAAAAGTTAATGACTC
27874843 CTCAATTCACAAATGTTATTAGCTCCATTAGTCAAAATTTCTAAAAGTTCTTTTAATTTTTGAAT
131 CTCAATTCACAAATGTTATTAGCTCCATTAGTCAAAATTTCTAAAAGTTCTTTTAATTTTTGAAT
*
27874908 TTTCTTTAAAACCAAATAATTTGCAGGAAAAGATATACAAACTAAAATTTCCA-AAATTTCGAGA
196 TTTCTTTAAAACCAAATAATTTGCAGGAAAAGATATACAAACTAAAATTT-CAGAAATTTCAAGA
*
27874972 TCTTTTCCCTGCATATTTCGAACCTATTTTTAGTGATAGAAGAAAGTAAGGCTACAGTTCGTTGA
260 TCTTTTCCCTGCATATTTCGAACCTATTTTCAGTGATAGAAGAAAGTAAGGCTACAGTTCGTTGA
* *
27875037 TCACTATAGTCGTGCTACTGCCGTGCTCATCTCATTGTTGTATCTTGGGAGACAGTCGACCAACG
325 TCACTATAGCCGTGCTACTGCCGTGCTCATCTCATTGTTGTATCTTGGGAGACAGTCGACCAACA
*
27875102 TTTCTCTAGCACCAAAGGAGCGACCGAATCT
390 TTTCTCCAGCACCAAAGGAGCGACCGAATCT
27875133 GTCTTAAGGA
Statistics
Matches: 402, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
455 400 1.00
456 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (455 bp):
CAGATATTTTAGCCTAATATGTAATTTTATTTTTCTCACCAAAGTTTATCTCTCCAAATTCTGCT
TGGAATTAAAAGGACAAATATTAAATTGAGGTTAATGACTCATTTAATTCAAAAGTTAATGACTC
CTCAATTCACAAATGTTATTAGCTCCATTAGTCAAAATTTCTAAAAGTTCTTTTAATTTTTGAAT
TTTCTTTAAAACCAAATAATTTGCAGGAAAAGATATACAAACTAAAATTTCAGAAATTTCAAGAT
CTTTTCCCTGCATATTTCGAACCTATTTTCAGTGATAGAAGAAAGTAAGGCTACAGTTCGTTGAT
CACTATAGCCGTGCTACTGCCGTGCTCATCTCATTGTTGTATCTTGGGAGACAGTCGACCAACAT
TTCTCCAGCACCAAAGGAGCGACCGAATCTATGAAAATAGGTTATTTTATTTTATTTTAGGTTTG
Found at i:27877348 original size:21 final size:21
Alignment explanation
Indices: 27877322--27877364 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27877312 TATTATGAAG
27877322 TATGTTAGATTCACTGATTGA
1 TATGTTAGATTCACTGATTGA
27877343 TATGTTAGATTCACTGATTGA
1 TATGTTAGATTCACTGATTGA
27877364 T
1 T
27877365 CGAATTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (21 bp):
TATGTTAGATTCACTGATTGA
Found at i:27881609 original size:3 final size:3
Alignment explanation
Indices: 27881603--27881629 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27881593 CAACAACAAC
27881603 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
27881630 CTAGCACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27886377 original size:211 final size:209
Alignment explanation
Indices: 27885835--27886858 Score: 970
Period size: 211 Copynumber: 4.9 Consensus size: 209
27885825 TATAATACGA
* * *
27885835 GCATAATACTTACTTCATCGGAGGATGAATCTTCCTCACTACTAGACTCTGAACTACTATCAGCT
1 GCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAGCT
* * * * * ** *
27885900 TTCACTGTCTTAGCAACTGGTATAGAGCCACTTTTAGCAACTACGGGTTTTTTCTTCTGAACAGA
66 TTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGTGCAGG
* * *
27885965 AGCTTCCTGGAATAAAACAGACA-ATTGAACATTAACAATCATGCAAAAGAATATTCCCAACCAT
131 AGCTTCCTGGGATAAAACA-AAATATTGAACATCAACAATCATGCAAAAGAATA-TCCCAACCAT
*
27886029 GCTAATATTACAAGCAT
194 ACTAA-ATTACAAGCAT
* * * * *
27886046 GAGTATAATAGTCACTTCGTCAGAGGATGAACCCTCCTCACTACTAGACTCAGAACTACTATCAG
1 --GCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAG
* * ** *** *
27886111 CTTTCACAGTCTTAGCATCTGGAACAGATACACTTTTAGTGGCTACAGATTTTTTATTCTGTGCA
64 CTTTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGTGCA
* *
27886176 GGAGCTTCCTGGGATAAGACAAAATATTGAACATCAACAATCATGCAAAAGAACACTCCCAACCA
129 GGAGCTTCCTGGGATAAAACAAAATATTGAACATCAACAATCATGCAAAAGAATA-TCCCAACCA
* * *
27886241 TACTCAAAATAAAACCAT
193 TACT-AAATTACAAGCAT
* * * *
27886259 GCATATTACTCACTTCATCAGAGGATGAGTCTTCTTCGCTACTAGACTCAGAACTACTATCAGCT
1 GCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAGCT
* * * * * ** *
27886324 TTAACAGTCTTAGCAGCCGGAATAGAGCCAGGTTTT-GCAGGTACAGGTTTTTTATTCTGAGCAG
66 TTCACTGTCTTAGCAGCTGGAACAGAGCCA-CTTTTAGCAACTACAGGTTTTTTATTCTGTGCAG
* * * * ** **
27886388 GAGCTTCCT--GA-AAAA-AAAACAATTGAACATTAACAATTATACAAAAGAAGGT-CCAATTAT
130 GAGCTTCCTGGGATAAAACAAAA-TATTGAACATCAACAATCATGCAAAAGAATATCCCAACCAT
* * * * *
27886448 GCGAACGTTTTAACTAGCAAGA
194 ACTAA---ATT-ACAAGC-A-T
* *
27886470 GCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTTGA---AGAACTGCTATCAGCT
1 GCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAGCT
* * ** * *
27886532 TTCAGTGTCTTGGCAGCTGGAACAGAGCCTTTTTTAGCAACTACAGGGTTTTTCTTCT-TAGCAG
66 TTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGT-GCAG
* *
27886596 GAGCTTCCT-GGATAAAACAAAATATTGAACATCAAAAATCATAG-AAAAGAATATAACCAACCA
130 GAGCTTCCTGGGATAAAACAAAATATTGAACATCAACAATCAT-GCAAAAGAATAT-CCCAACCA
*
27886659 -AGCTATATTACAAGCAT
193 TA-CTAAATTACAAGCAT
* * * *
27886676 GAGCATGATACTCACTTCGTCAGAGGATGAATCTTCCTCACTGCTAGACTCAGAACCACTATCAG
1 --GCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAG
* * * *
27886741 CTTTCACTGTCTTGGCAGCTGGAACAGGGCCATTTTTAGAAACTACAGGTTTTTTATTC--TG-A
64 CTTTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGTGCA
* * * *
27886803 GGAGCTTCCTGGAATATTAAA-AAAATATTTGAACATTAACGATCATAC-AAAGAATA
129 GGAGCTTCCTGGGATA--AAACAAAATA-TTGAACATCAACAATCATGCAAAAGAATA
27886859 CATCTTGACC
Statistics
Matches: 660, Mismatches: 122, Indels: 61
0.78 0.14 0.07
Matches are distributed among these distances:
205 2 0.00
206 7 0.01
207 10 0.02
208 156 0.24
209 14 0.02
210 44 0.07
211 240 0.36
212 13 0.02
213 172 0.26
214 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (209 bp):
GCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAGCT
TTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGTGCAGG
AGCTTCCTGGGATAAAACAAAATATTGAACATCAACAATCATGCAAAAGAATATCCCAACCATAC
TAAATTACAAGCAT
Found at i:27886725 original size:419 final size:422
Alignment explanation
Indices: 27885833--27886858 Score: 1154
Period size: 419 Copynumber: 2.4 Consensus size: 422
27885823 AATATAATAC
* * *
27885833 GAGCATAATACTTACTTCATCGGAGGATGAATCTTCCTCACTACTAGACTCTGAACTACTATCAG
1 GAGCAT-ATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAG
* * * * *
27885898 CTTTCACTGTCTTAGCAACTGGTATAGAGCCACTTTTAGCAACTACGGGTTTTTTCTTCTGAACA
65 CTTTCACTGTCTTAGCAGCTGGAATAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGAGCA
* * * *
27885963 GAAGCTTCCTGGAATAAAACAGACAATTGAACATTAACAATCATGCAAAAGAATATTCCCAACCA
130 GGAGCTTCCTGGAATAAAA-AAACAATTGAACATTAACAATCATACAAAAGAATAGTCCCAACCA
* * * * *
27886028 TGCTAATATTACAAGCATGAGTATAATAGTCACTTCGTCAGAGGATGAACCCTCCTCACTACTAG
194 TGCGAATATTACAAGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCCTCCTCACTACTAG
* * ***
27886093 ACTCAGAACTACTATCAGCTTTCACAGTCTTAGCATCTGGAACAGATACACTTTTAGTGGCTACA
259 A--CAGAACTACTATCAGCTTTCACAGTCTTAGCAGCTGGAACAGAGACACTTTTAGCAACTACA
* * *
27886158 GATTTTTTATTCTGTGCAGGAGCTTCCTGGGATAAGACAAAATATTGAACATCAACAATCATGCA
322 GAGTTTTTATTCTGTGCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAATCATGCA
*
27886223 AAAGAACACTCCCAACCATACTCAAAATAAAACCAT
387 AAAGAACACTACCAACCATACTCAAAATAAAACCAT
* * *
27886259 --GCATATTACTCACTTCATCAGAGGATGAGTCTTCTTCGCTACTAGACTCAGAACTACTATCAG
1 GAGCATA-TACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAG
* * * * **
27886322 CTTTAACAGTCTTAGCAGCCGGAATAGAGCCAGGTTTT-GCAGGTACAGGTTTTTTATTCTGAGC
65 CTTTCACTGTCTTAGCAGCTGGAATAGAGCCA-CTTTTAGCAACTACAGGTTTTTTATTCTGAGC
* * **
27886386 AGGAGCTTCCT-GAA-AAAAAAACAATTGAACATTAACAATTATACAAAAGAA-GGT-CCAATTA
129 AGGAGCTTCCTGGAATAAAAAAACAATTGAACATTAACAATCATACAAAAGAATAGTCCCAACCA
* * * *
27886447 TGCGAACGTTTTAACTAGCAAGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTAC
194 TGCGAA--TATT-ACAAGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCCTCCTCACTAC
* * ** * * **
27886512 TTGA-AGAACTGCTATCAGCTTTCAGTGTCTTGGCAGCTGGAACAGAGCCTTTTTTAGCAACTAC
256 TAGACAGAACTACTATCAGCTTTCACAGTCTTAGCAGCTGGAACAGAGACACTTTTAGCAACTAC
* *
27886576 AGGGTTTTTCTTCT-TAGCAGGAGCTTCCT-GGATAAAACAAAATATTGAACATCAAAAATCATA
321 AGAGTTTTTATTCTGT-GCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAATCAT-
* * * * *
27886639 G-AAAAGAATA-TAACCAACCA-AGCT-ATATTACAAGCAT
384 GCAAAAGAACACT-ACCAACCATA-CTCAAAATAAAACCAT
* * *
27886676 GAGCATGATACTCACTTCGTCAGAGGATGAATCTTCCTCACTGCTAGACTCAGAACCACTATCAG
1 GAGCAT-ATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAG
* * * * *
27886741 CTTTCACTGTCTTGGCAGCTGGAACAGGGCCATTTTTAGAAACTACAGGTTTTTTATTCT--G-A
65 CTTTCACTGTCTTAGCAGCTGGAATAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGAGCA
*
27886803 GGAGCTTCCTGGAATATTAAAAAA-ATATTTGAACATTAACGATCATAC-AAAGAATA
130 GGAGCTTCCTGGAATA--AAAAAACA-A-TTGAACATTAACAATCATACAAAAGAATA
27886859 CATCTTGACC
Statistics
Matches: 503, Mismatches: 77, Indels: 45
0.80 0.12 0.07
Matches are distributed among these distances:
416 11 0.02
417 15 0.03
418 54 0.11
419 184 0.37
420 15 0.03
421 51 0.10
422 52 0.10
423 4 0.01
424 113 0.22
425 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (422 bp):
GAGCATATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCAGC
TTTCACTGTCTTAGCAGCTGGAATAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGAGCAG
GAGCTTCCTGGAATAAAAAAACAATTGAACATTAACAATCATACAAAAGAATAGTCCCAACCATG
CGAATATTACAAGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCCTCCTCACTACTAGAC
AGAACTACTATCAGCTTTCACAGTCTTAGCAGCTGGAACAGAGACACTTTTAGCAACTACAGAGT
TTTTATTCTGTGCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAATCATGCAAAAG
AACACTACCAACCATACTCAAAATAAAACCAT
Found at i:27890790 original size:20 final size:20
Alignment explanation
Indices: 27890765--27890805 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27890755 CTTCCTTACC
27890765 CCCAACCGATAAGTAGTGTA
1 CCCAACCGATAAGTAGTGTA
27890785 CCCAACCGATAAGTAGTGTA
1 CCCAACCGATAAGTAGTGTA
27890805 C
1 C
27890806 GCTCTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (20 bp):
CCCAACCGATAAGTAGTGTA
Found at i:27893267 original size:27 final size:27
Alignment explanation
Indices: 27893210--27893529 Score: 320
Period size: 27 Copynumber: 11.9 Consensus size: 27
27893200 GGGTATAAAA
* *
27893210 GTCATTTTACCCTAT-GAGG-ATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
27893235 GTCATTTTAACCTATGGAAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
27893262 GTCATTCTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
27893289 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
27893316 ATCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
27893343 GTTATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
27893370 GTTATTTTACCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
27893397 GTTATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
27893424 GTCATTCTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
27893451 ATCATTTTACTCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
27893478 GCCATTCTATCGTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
27893505 ATAATTTAACCCTATGGAGGTATTT
1 GTCATTTTACCCTATGGGGGTATTT
27893530 TGGTTATAAC
Statistics
Matches: 239, Mismatches: 54, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
25 14 0.06
26 3 0.01
27 222 0.93
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:27897071 original size:29 final size:30
Alignment explanation
Indices: 27897039--27897097 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
27897029 TATCGTTTAA
* *
27897039 TGTGCAATTGTATACATG-AATTTTGATTT
1 TGTGAAATTGTATACAAGAAATTTTGATTT
*
27897068 TGTGAAATTTTATACAAGAAATTTTGATTT
1 TGTGAAATTGTATACAAGAAATTTTGATTT
27897098 GATTCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.47
Consensus pattern (30 bp):
TGTGAAATTGTATACAAGAAATTTTGATTT
Found at i:27906381 original size:25 final size:27
Alignment explanation
Indices: 27906347--27906397 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
27906337 ATATTATTAA
27906347 TATAATATA-TAA-ATGTTATAATAAG
1 TATAATATATTAATATGTTATAATAAG
27906372 TATAATATATTAATATGTTATAATAA
1 TATAATATATTAATATGTTATAATAA
27906398 ACATTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAATATATTAATATGTTATAATAAG
Found at i:27913674 original size:20 final size:21
Alignment explanation
Indices: 27913632--27913679 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
27913622 TACTTTTAAA
*
27913632 AAAGTATAGATACATTGGTGC
1 AAAGTATAAATACATTGGTGC
*
27913653 AAAGTATAAATA-ATTTGTGC
1 AAAGTATAAATACATTGGTGC
27913673 AAAGTAT
1 AAAGTAT
27913680 CTATACCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (21 bp):
AAAGTATAAATACATTGGTGC
Found at i:27914710 original size:9 final size:9
Alignment explanation
Indices: 27914688--27914727 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
27914678 GAAATAGGGA
27914688 GAAAGGAAAG
1 GAAA-GAAAG
*
27914698 GAAAGAAAT
1 GAAAGAAAG
27914707 GAAAGAAA-
1 GAAAGAAAG
27914715 GAAAGAAAG
1 GAAAGAAAG
27914724 GAAA
1 GAAA
27914728 AACTAGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.29
9 16 0.57
10 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (9 bp):
GAAAGAAAG
Found at i:27916491 original size:26 final size:26
Alignment explanation
Indices: 27916461--27916512 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
27916451 AATGGTTGTG
*
27916461 GTTTGAAATTGCAGGGAAGGTTAGAT
1 GTTTGAAATTGCAGGAAAGGTTAGAT
* *
27916487 GTTTGAAATTGTAGGAAATGTTAGAT
1 GTTTGAAATTGCAGGAAAGGTTAGAT
27916513 AATTATAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.35
Consensus pattern (26 bp):
GTTTGAAATTGCAGGAAAGGTTAGAT
Found at i:27925682 original size:22 final size:22
Alignment explanation
Indices: 27925657--27925728 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
27925647 AGTACTTTGG
27925657 TGCTCTTTGTTCAACACTTCGA
1 TGCTCTTTGTTCAACACTTCGA
* *
27925679 TGCTCTCTGCTT-ATCACTTTCG-
1 TGCTCTTTG-TTCAACAC-TTCGA
* * *
27925701 TGCTCTTTGATCAGCATTTCGA
1 TGCTCTTTGTTCAACACTTCGA
27925723 TGCTCT
1 TGCTCT
27925729 CTTCTTAGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 5 0.12
22 29 0.73
23 6 0.15
ACGTcount: A:0.14, C:0.28, G:0.15, T:0.43
Consensus pattern (22 bp):
TGCTCTTTGTTCAACACTTCGA
Found at i:27925722 original size:44 final size:44
Alignment explanation
Indices: 27925645--27925754 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
27925635 GTGTACGAGT
* * *
27925645 TTAGTACTTTGGTGCTCTTTGTTCAACACTTCGATGCTCTCTGC
1 TTAGCACTTTCGTGCTCTTTGATCAACACTTCGATGCTCTCTGC
* * * *
27925689 TTATCACTTTCGTGCTCTTTGATCAGCATTTCGATGCTCTCTTC
1 TTAGCACTTTCGTGCTCTTTGATCAACACTTCGATGCTCTCTGC
27925733 TTAGCAC-TTCAGTGCT-TTTGAT
1 TTAGCACTTTC-GTGCTCTTTGAT
27925755 TTATCACTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 9 0.16
44 48 0.84
ACGTcount: A:0.15, C:0.25, G:0.16, T:0.45
Consensus pattern (44 bp):
TTAGCACTTTCGTGCTCTTTGATCAACACTTCGATGCTCTCTGC
Found at i:27925738 original size:22 final size:23
Alignment explanation
Indices: 27925674--27925741 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
27925664 TGTTCAACAC
* *
27925674 TTCGATGCTCTCTGCTTATCACT
1 TTCGATGCTCTCTTCTTAGCACT
* *
27925697 TTCG-TGCTCT-TTGATCAGCA-T
1 TTCGATGCTCTCTT-CTTAGCACT
27925718 TTCGATGCTCTCTTCTTAGCACT
1 TTCGATGCTCTCTTCTTAGCACT
27925741 T
1 T
27925742 CAGTGCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
21 6 0.17
22 21 0.60
23 8 0.23
ACGTcount: A:0.13, C:0.28, G:0.15, T:0.44
Consensus pattern (23 bp):
TTCGATGCTCTCTTCTTAGCACT
Found at i:27927423 original size:20 final size:20
Alignment explanation
Indices: 27927391--27927442 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
27927381 ATATATCTTG
27927391 AATT-ATTTAATTCTAATCA
1 AATTGATTTAATTCTAATCA
* *
27927410 ATTTGATTTGATTCTAATCA
1 AATTGATTTAATTCTAATCA
*
27927430 AATTGATTCAATT
1 AATTGATTTAATT
27927443 GCCCCATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (20 bp):
AATTGATTTAATTCTAATCA
Found at i:27928464 original size:40 final size:41
Alignment explanation
Indices: 27928376--27928470 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 41
27928366 GTTTGGATAA
* * **
27928376 AAAACGCCGCT-AAAGATCGAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAGATCAAGCATTAGCGCCGCTTTTCAG
27928416 AAAACGCCGCTAAAAGAT-AAGCATTAGCGCCG-TTTTCCAG
1 AAAACGCCGCTAAAAGATCAAGCATTAGCGCCGCTTTT-CAG
* *
27928456 AAAGCGCCGCAAAAA
1 AAAACGCCGCTAAAA
27928471 ACCTAAGCCC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.09
40 37 0.79
41 6 0.13
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGATCAAGCATTAGCGCCGCTTTTCAG
Found at i:27928563 original size:41 final size:41
Alignment explanation
Indices: 27928506--27928647 Score: 214
Period size: 41 Copynumber: 3.5 Consensus size: 41
27928496 TGAGCTTTCG
* *
27928506 GGGCTTTAGCGGCGTTTTTAGGAAAGTGCCGCCAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAGGTAAGTGCCGCTAATGCTCA
*
27928547 GGGCTTTAGCTGCGTTTTT-GAGTAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAG-GTAAGTGCCGCTAATGCTCA
* * *
27928588 GGGATTTAGCGGCGTTTTTAGGTAAGCGCCGCTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTAGGTAAGTGCCGCTAATGCTCA
27928629 GGGCTTTAGCGGCGTTTTT
1 GGGCTTTAGCGGCGTTTTT
27928648 TTGTGAAAAC
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.01
41 89 0.98
42 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.32
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTAGGTAAGTGCCGCTAATGCTCA
Found at i:27928929 original size:161 final size:157
Alignment explanation
Indices: 27928690--27928990 Score: 467
Period size: 161 Copynumber: 1.9 Consensus size: 157
27928680 GGTTTAGGGG
27928690 TTATTATAATTTAAAGTTTATCAATATGGTTTAGGGTTTTAGGGTTTATTATATAATATTTATTA
1 TTATTATAATTTAAAGTTTATCAATATGGTTTAGGGTTTTAGGGTTTATTATATAATATTTATTA
* * * * *
27928755 TTTTGGGATTAGAGTTTTGAGTTTAGGGTTTATGGTGTAAGTTTAGTGTTTTGGGTTTAGGGTTT
66 TTTTGGGATTAGAGTCTTGAGTTTAGGGTTTATGATGTAAGTTTAGTATTTTGAGTTTAGGGGTT
*
27928820 GGGAGTTTGGTGATTAAGGTTTAGTTA
131 AGGAGTTTGGTGATTAAGGTTTAGTTA
* * *
27928847 TTATTATAATTTAAAGTTTTTCGTATATGGTTTAGGGTTTTAGGGTTAATCATTATATAATGTTT
1 TTATTATAATTTAAAGTTTATC-AATATGGTTTAGGGTTTTAGGGTT--T-ATTATATAATATTT
* *
27928912 ATTATTTTGGGATTAGAGTCTTGAGTTTAGGGTTTATGATGTAGGTTTAGTATTTTTAGTTTAGG
62 ATTATTTTGGGATTAGAGTCTTGAGTTTAGGGTTTATGATGTAAGTTTAGTATTTTGAGTTTAGG
27928977 GGTTAGGAGTTTGG
127 GGTTAGGAGTTTGG
27928991 GGTTTAAGAT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
157 21 0.16
158 23 0.18
160 1 0.01
161 84 0.65
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.50
Consensus pattern (157 bp):
TTATTATAATTTAAAGTTTATCAATATGGTTTAGGGTTTTAGGGTTTATTATATAATATTTATTA
TTTTGGGATTAGAGTCTTGAGTTTAGGGTTTATGATGTAAGTTTAGTATTTTGAGTTTAGGGGTT
AGGAGTTTGGTGATTAAGGTTTAGTTA
Found at i:27929984 original size:253 final size:253
Alignment explanation
Indices: 27929519--27930186 Score: 1113
Period size: 253 Copynumber: 2.6 Consensus size: 253
27929509 AAAACACCTC
* * *
27929519 AAAAAACATA-TAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATATTATTGGCGT
1 AAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTTAGTGGTGT
* * * * *
27929583 TTTTTGTCAAAATGCCGTAAAAGTTGTGAAACTAGTGGCATTTTTTCGTAAGCGCCGCAAATGTT
66 TTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCGTTTTTTCGTAAGCGCCGCAAATGTT
27929648 AAAATAGAAAACGACGCCGTTTTAAACATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGT
131 AAAATAGAAAACGACGCCGTTTTAAACATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGT
* *
27929713 TTCCATGTAAAACGCCACAAAATCTAAATACTAGCGGCATTTGTTTGGAAAATGCTGA
196 TTCCATGTAAAACGCCACAAAATCTAAATACTAGCAGCATTTGTTTGGAAAATGCCGA
27929771 AAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTTAGTGGTGT
1 AAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTTAGTGGTGT
27929836 TTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCGTTTTTTCGTAAGCGCCGCAAATGTT
66 TTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCGTTTTTTCGTAAGCGCCGCAAATGTT
* * * * * *
27929901 GAAATGGAAAACGACGTCGTTTTTAGCATAAATAATATTAATAGAAAGTTAATCAGTAGCGGCGT
131 AAAATAGAAAACGACGCCGTTTTAAACATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGT
* *
27929966 TTCGATGTAAAGCGCCACAAAATCTAAATACTAGCAGCATTTGTTTGGAAAATGCCGA
196 TTCCATGTAAAACGCCACAAAATCTAAATACTAGCAGCATTTGTTTGGAAAATGCCGA
27930024 AAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTTAGTGGTGT
1 AAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTTAGTGGTGT
* *
27930089 TTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCGTTTTTTTGTAAGTGCCGCAAATGTT
66 TTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCGTTTTTTCGTAAGCGCCGCAAATGTT
* ** *
27930154 AAAATAGAAAACAAATCCGTTTTTAACATAAAT
131 AAAATAGAAAACGACGCCGTTTTAAACATAAAT
27930187 CAGGTTCTTT
Statistics
Matches: 388, Mismatches: 27, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
252 10 0.03
253 378 0.97
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (253 bp):
AAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTTAGTGGTGT
TTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCGTTTTTTCGTAAGCGCCGCAAATGTT
AAAATAGAAAACGACGCCGTTTTAAACATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGT
TTCCATGTAAAACGCCACAAAATCTAAATACTAGCAGCATTTGTTTGGAAAATGCCGA
Found at i:27931091 original size:122 final size:122
Alignment explanation
Indices: 27930874--27931117 Score: 400
Period size: 122 Copynumber: 2.0 Consensus size: 122
27930864 CAACTGCTTT
* *
27930874 CCCTGACATACAACATTAGAATTCTATGTTATATACACTTTGAACCTTTTTGCATTCAGCATTGA
1 CCCTGACATACAACATTAGAATTCAATGTTATATACACTTTGAACCTTTCTGCATTCAGCATTGA
* ** *
27930939 CTTGAAAACTGGGAATCTAAGCTCAGAAATTGTGAATGG-ATCAAGTGGCACCTCATA
66 CTAGAAAACTAAGAATCTAAGCTCAGAAATTGTG-ACGGTATCAAGTGGCACCTCATA
* *
27930996 CCCTGACATGCAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCATTCAGCATTGA
1 CCCTGACATACAACATTAGAATTCAATGTTATATACACTTTGAACCTTTCTGCATTCAGCATTGA
27931061 CTAGAAAACTAAGAATCTAAGCTCAGAAATTGTGACGGTATCAAGTGGCACCTCATA
66 CTAGAAAACTAAGAATCTAAGCTCAGAAATTGTGACGGTATCAAGTGGCACCTCATA
27931118 TAGCATGCAT
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
121 3 0.03
122 110 0.97
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (122 bp):
CCCTGACATACAACATTAGAATTCAATGTTATATACACTTTGAACCTTTCTGCATTCAGCATTGA
CTAGAAAACTAAGAATCTAAGCTCAGAAATTGTGACGGTATCAAGTGGCACCTCATA
Found at i:27932968 original size:71 final size:74
Alignment explanation
Indices: 27932874--27933053 Score: 188
Period size: 71 Copynumber: 2.4 Consensus size: 74
27932864 TACAAAAATG
* * *
27932874 CGCTAAAAGTCAGGATCTATAGCGGCGTTTGTA-AGAAAAGCGCCGCTAAAAGT-C-A-TTTTGT
1 CGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGA-AAAAGCGCCGCTAAAAGTCCAAGGTTTGT
*
27932935 GTAAAAGCGC
65 GGAAAAGCGC
* * * * *
27932945 CGCTAAAGGTCCTGATCTATAGCGGAGTTTGTGGAAAAAGTGCCGCTAAAGGTCCTAAGGGGCGT
1 CGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCC-AA---G-GT
*
27933010 TTGTGGGAAAGCGC
61 TTGTGGAAAAGCGC
27933024 CGCTAAAGGTCATGATCTATAGCGGCGTTT
1 CGCTAAAGGTCATGATCTATAGCGGCGTTT
27933054 ATTTCTAAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
71 44 0.50
72 2 0.02
74 1 0.01
79 41 0.47
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (74 bp):
CGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCCAAGGTTTGTG
GAAAAGCGC
Found at i:27932990 original size:43 final size:42
Alignment explanation
Indices: 27932930--27933053 Score: 143
Period size: 43 Copynumber: 3.1 Consensus size: 42
27932920 TAAAAGTCAT
* *
27932930 TTTGTGTAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGAG
1 TTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCG
* *
27932972 TTTGTGGAAAAAGTGCCGCTAAAGGT-C----CTA-AGGGGCG
1 TTTGTGG-AAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCG
* *
27933009 TTTGTGGGAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCG
1 TTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCG
27933051 TTT
1 TTT
27933054 ATTTCTAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
36 16 0.24
37 12 0.18
38 3 0.04
41 3 0.04
42 16 0.24
43 17 0.25
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (42 bp):
TTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCG
Found at i:27940504 original size:19 final size:19
Alignment explanation
Indices: 27940482--27940519 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27940472 AATTTTGATT
*
27940482 AAATAAATTTAAATTAATA
1 AAATAAATTAAAATTAATA
*
27940501 AAATTAATTAAAATTAATA
1 AAATAAATTAAAATTAATA
27940520 TGATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAAATTAAAATTAATA
Found at i:27958838 original size:97 final size:97
Alignment explanation
Indices: 27958672--27958931 Score: 403
Period size: 97 Copynumber: 2.7 Consensus size: 97
27958662 ATCGATATCA
* *
27958672 CAACACATTTAAATCAACAGAAAAAGACTAACTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
*
27958737 CCATTAAGTTCGCGAAGAATTATTAAGGCTTT
66 CCATTAAGTTCGCGAAGAACTATTAAGGCTTT
* *
27958769 CAACACATTTAAAGCAACAGAAATCGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
*
27958834 CCATTATGTTCGCGAAGAACTATTAAGGCTTT
66 CCATTAAGTTCGCGAAGAACTATTAAGGCTTT
* * * * * * *
27958866 CAACGCATTTAAATCAACAGAAACCGACTAATTTTTCTCCAATCTATTTCAAATTTAGGGTTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
27958931 C
66 C
27958932 AATCAGGTGT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 149 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (97 bp):
CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
CCATTAAGTTCGCGAAGAACTATTAAGGCTTT
Found at i:27963561 original size:68 final size:69
Alignment explanation
Indices: 27963470--27963607 Score: 269
Period size: 68 Copynumber: 2.0 Consensus size: 69
27963460 AAAAAAATCT
27963470 TAATTTAAATAAAATAAACGTAATTATCTAAAAAAAATTCTCAGTAGAAAAACTTTTTAGTAGAA
1 TAATTTAAATAAAATAAACGTAATTATCTAAAAAAAATTCTCAGTAGAAAAACTTTTTAGTAGAA
27963535 CGTA
66 CGTA
27963539 TAATTTAAAT-AAATAAACGTAATTATCTAAAAAAAATTCTCAGTAGAAAAACTTTTTAGTAGAA
1 TAATTTAAATAAAATAAACGTAATTATCTAAAAAAAATTCTCAGTAGAAAAACTTTTTAGTAGAA
27963603 CGTA
66 CGTA
27963607 T
1 T
27963608 GAAATATTGA
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 59 0.86
69 10 0.14
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (69 bp):
TAATTTAAATAAAATAAACGTAATTATCTAAAAAAAATTCTCAGTAGAAAAACTTTTTAGTAGAA
CGTA
Found at i:27964680 original size:11 final size:11
Alignment explanation
Indices: 27964582--27964678 Score: 78
Period size: 11 Copynumber: 9.2 Consensus size: 11
27964572 TCATTTCTTT
27964582 AATTTCCTCTC
1 AATTTCCTCTC
27964593 AATTTCCTCTC
1 AATTTCCTCTC
**
27964604 AATTTGGTCTC
1 AATTTCCTCTC
*
27964615 AATTTCGTCTC
1 AATTTCCTCTC
*
27964626 AA-ATCCT-T-
1 AATTTCCTCTC
* **
27964634 -ACTTAATCTC
1 AATTTCCTCTC
*
27964644 AATTTGCTCTC
1 AATTTCCTCTC
27964655 AATTTCCTCTC
1 AATTTCCTCTC
27964666 AAATTT-CTCTC
1 -AATTTCCTCTC
27964677 AA
1 AA
27964679 ATCCCTATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
7 1 0.01
8 2 0.03
9 2 0.03
10 5 0.07
11 54 0.78
12 5 0.07
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (11 bp):
AATTTCCTCTC
Found at i:27967518 original size:8 final size:9
Alignment explanation
Indices: 27967498--27967522 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27967488 CATAAATTTT
27967498 AAAAATTCA
1 AAAAATTCA
27967507 AAAAATTCA
1 AAAAATTCA
27967516 AAAAATT
1 AAAAATT
27967523 ATTCTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTCA
Found at i:27974354 original size:28 final size:27
Alignment explanation
Indices: 27974317--27974411 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
27974307 TATTTACTAT
*
27974317 TATATTTAAAATTTTAAAATATTTCATG
1 TATAATTAAAATTTTAAAATATTT-ATG
27974345 TATAATT-AAA-TTTACAAATAATTTAT-
1 TATAATTAAAATTTTA-AAAT-ATTTATG
*
27974371 TAATTATTAAAAATATTTAATATATATTTTATG
1 T-ATAATT-AAAAT-TTTAA-A-ATA-TTTATG
27974404 TATAATTA
1 TATAATTA
27974412 TATTAAATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
26 5 0.09
27 14 0.26
28 10 0.19
29 3 0.06
30 1 0.02
31 7 0.13
32 12 0.23
33 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
TATAATTAAAATTTTAAAATATTTATG
Found at i:27975120 original size:11 final size:11
Alignment explanation
Indices: 27975096--27975160 Score: 80
Period size: 11 Copynumber: 6.1 Consensus size: 11
27975086 CAAATAAATC
27975096 ATTT-CTCT-A
1 ATTTCCTCTCA
27975105 ATTTCCTCTCA
1 ATTTCCTCTCA
27975116 ATTTCCTCTCA
1 ATTTCCTCTCA
*
27975127 ATTTGCTCTCA
1 ATTTCCTCTCA
*
27975138 ATTTTCTCTCA
1 ATTTCCTCTCA
* *
27975149 AATTACTCTCA
1 ATTTCCTCTCA
27975160 A
1 A
27975161 ATCCGTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 42 0.84
ACGTcount: A:0.23, C:0.29, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTTCCTCTCA
Found at i:27976989 original size:18 final size:18
Alignment explanation
Indices: 27976966--27977008 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
27976956 TGCCAGGTGC
* *
27976966 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
*
27976984 GTATCCAAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
27977002 GTTTCCT
1 GTATCCT
27977009 TTTTCGAGTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:27980816 original size:126 final size:126
Alignment explanation
Indices: 27980591--27981002 Score: 650
Period size: 126 Copynumber: 3.3 Consensus size: 126
27980581 ATTTATAGCC
* * * *
27980591 TCAGGAGTTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAG
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGTTTTTTTCAGTACTTCTGCTGACAAAG
* *
27980656 CATCCTGCTTAAAGCGTTTTTTACACTGTTTGCTCAAAAACGTCTACTCGAAATTATTTTT
66 CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
*
27980717 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGTTTTTTTCAGTACTTCTGCTAACAAAG
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGTTTTTTTCAGTACTTCTGCTGACAAAG
* * *
27980782 CATCCTACTCAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTATTCGAAATTATTTTT
66 CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
* *
27980843 TCAGGAGCTACTGTAGCAAAAGCGCGTTCATGT-GAGAGCTTTTTTT-AGTACTTCTGCTGACAA
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGA-AG-TTTTTTTCAGTACTTCTGCTGACAA
* *
27980906 AGCATCCTGTTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTC
64 AGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
*
27980969 TCAGGAGCCACTGTAGCAAAAGCGCGT-CACGTGG
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGG
27981003 GAGCTTCTTT
Statistics
Matches: 263, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
125 6 0.02
126 250 0.95
127 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (126 bp):
TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGTTTTTTTCAGTACTTCTGCTGACAAAG
CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
Found at i:27981281 original size:91 final size:92
Alignment explanation
Indices: 27981045--27981363 Score: 381
Period size: 91 Copynumber: 3.4 Consensus size: 92
27981035 AGTAACTGTA
* * * * * * * *
27981045 AACCCCAAACCCTAATTTATTTGAATTTTTACTTAAAAATCCTAAACCCTAAACCCTAAACTAAT
1 AACCCTAAACCCTAA-TT-TTTG-ATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGAT
* * *
27981110 TTATTATAAATTTATAATTAATTTACTCAAGT
63 TT-TTA-AATTTTTTAATTAAATTACTCAAGT
* * *
27981142 AACCCTGAACCCTAATTTATTTAATTTTTT-TTAAAAACCCTTAACTCTAAATCCTAATTTGATT
1 AACCCTAAACCCTAA-TT-TTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
*
27981206 TTTAATTTTTTTAATTAAATTACTCAAGT
64 TTTAAATTTTTTAATTAAATTACTCAAGT
*
27981235 AACCCTAAACCTTAA-TTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATTTT
1 AACCCTAAACCCTAATTTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATTTT
*
27981299 TAAATTTTTTAATTAAATTACTCCAGT
66 TAAATTTTTTAATTAAATTACTCAAGT
*
27981326 AACCTTAAACCCTAATTTAATTGATTTTTTCTTAAAAA
1 AACCCTAAACCCTAATTT--TTGATTTTTTCTTAAAAA
27981364 ATAATAAACA
Statistics
Matches: 195, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
90 10 0.05
91 74 0.38
92 2 0.01
93 34 0.17
94 21 0.11
95 28 0.14
96 6 0.03
97 20 0.10
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (92 bp):
AACCCTAAACCCTAATTTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATTTT
TAAATTTTTTAATTAAATTACTCAAGT
Found at i:27981306 original size:47 final size:45
Alignment explanation
Indices: 27981161--27981308 Score: 135
Period size: 46 Copynumber: 3.3 Consensus size: 45
27981151 CCCTAATTTA
*
27981161 TTTAATTTTTTTTAAAAACCCTTAACTCTAAATCCTAATTTGATT
1 TTTAATTTTTTTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
* * * * *
27981206 TTTAA-TTTTTTTAATTAAA---TT-ACTCAAGTAACCCTAAACCTTAAT
1 TTTAATTTTTTTTAA--AAACCCTTAACTCTA--AATCCT-AATCTGATT
*
27981251 TTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
1 TTTAATTTTTT-TTAAAAACCCTTAACTCTAAATCCTAATCTGATT
*
27981297 TTTAAATTTTTT
1 TTTAATTTTTTT
27981309 AATTAAATTA
Statistics
Matches: 78, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
42 5 0.06
43 2 0.03
44 14 0.18
45 18 0.23
46 23 0.29
47 9 0.12
48 2 0.03
49 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.49
Consensus pattern (45 bp):
TTTAATTTTTTTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
Found at i:27989738 original size:18 final size:18
Alignment explanation
Indices: 27989715--27989751 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
27989705 TCAATCTAAA
*
27989715 ACCAAACCAAGGCATACC
1 ACCAAACCAACGCATACC
27989733 ACCAAACCAACGCATACC
1 ACCAAACCAACGCATACC
27989751 A
1 A
27989752 AAGTATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.41, G:0.08, T:0.05
Consensus pattern (18 bp):
ACCAAACCAACGCATACC
Found at i:27991976 original size:2 final size:2
Alignment explanation
Indices: 27991969--27992209 Score: 482
Period size: 2 Copynumber: 120.5 Consensus size: 2
27991959 TCATACATAC
27991969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27992011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27992053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27992095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27992137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27992179 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27992210 CTGATTTTGT
Statistics
Matches: 239, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 239 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27993661 original size:43 final size:43
Alignment explanation
Indices: 27993563--27994017 Score: 388
Period size: 43 Copynumber: 10.7 Consensus size: 43
27993553 TAGAATACGA
* * *
27993563 TCTTTAGCGGCGCTTACAC-AAAAACGCCACTATAGGT-GGGAG
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGG-T
**
27993605 TCTTTCTCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
* * * *
27993648 TCTCTAGCAGCGCTTATACAAAAAACGCCACTATAGATTGGGA
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
* * * * *
27993691 TCTTT-CCTGGCGTTTGTACAGAAAACGCCACTATAGATAGCGG-
1 TCTTTAGC-GGCGCTTATACAAAAAACGCCACTATAGATCG-GGT
** * * * *
27993734 -CTTTCCCGGCACTTATACAAAAAATGCCACGATAGCTCGGG-
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
* * * *** *
27993775 TCTATAGCGGCGCTTATA-AAGAAACGCCACGATAGAGATGGC
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
** * **
27993817 TCTTTAGCGGCGCTTATACAGGAAACGCCACTATAGATTGGCA
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
* * *
27993860 TCTTTCGCGGCGCTTATTCAAAAAACGCCACTATAGATTGGAGT
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGG-GT
* * * *
27993904 T-TTTTGCGGCGCTTATACAGAAAACGCCACTATAGATTGGGG
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
** * * *
27993946 TCTTTAGCGGCGCTTGGACAGAAAATGCCACTATAG-GCGGGGT
1 TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATC-GGGT
* *
27993989 TCTTTAGCGGCGCTTATCCAAGAAACGCC
1 TCTTTAGCGGCGCTTATACAAAAAACGCC
27994018 GCTAATTTTG
Statistics
Matches: 335, Mismatches: 67, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
41 19 0.06
42 77 0.23
43 233 0.70
44 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTATACAAAAAACGCCACTATAGATCGGGT
Found at i:27993934 original size:212 final size:215
Alignment explanation
Indices: 27993612--27994017 Score: 525
Period size: 212 Copynumber: 1.9 Consensus size: 215
27993602 GAGTCTTTCT
**
27993612 CGGCGCTTATACAAAAAACGCCACTATAGATCGGGTTCTCTAGCAGCGCTTATACAAAAAACGCC
1 CGGCGCTTATACAAAAAACGCCACTATAGATCGGCATCTCTAGCAGCGCTTATACAAAAAACGCC
* * *
27993677 ACTATAGATTGGGATCTTTCCTGGCGTTTGTACAGAAAACGCCACTATAGATAGCGG-CTTTCCC
66 ACTATAGATTGGGATCTTTCCTGGCGCTTATACAGAAAACGCCACTATAGATAGCGGTCTTTACC
*
27993741 GGCACTTATACAAAAAATGCCACGATA-GCTCGGG-TCTATAGCGGCGCTTAT-AAAGAAACGCC
131 GGCACTTAGACAAAAAATGCCACGATAGGC-CGGGTTCTATAGCGGCGCTTATCAAAGAAACGCC
27993803 ACGATAGAGATGGCTCTTTAG
195 ACGATAGAGATGGCTCTTTAG
** * * * * *
27993824 CGGCGCTTATACAGGAAACGCCACTATAGATTGGCATCTTTCGCGGCGCTTATTCAAAAAACGCC
1 CGGCGCTTATACAAAAAACGCCACTATAGATCGGCATCTCTAGCAGCGCTTATACAAAAAACGCC
* * * * * *
27993889 ACTATAGATTGGAGTTTTTTGC-GGCGCTTATACAGAAAACGCCACTATAGATTGGGGTCTTTAG
66 ACTATAGATTGG-GATCTTTCCTGGCGCTTATACAGAAAACGCCACTATAGATAGCGGTCTTTAC
* * * * * * *
27993953 CGGCGCTTGGACAGAAAATGCCACTATAGGCGGGGTTCTTTAGCGGCGCTTATCCAAGAAACGCC
130 CGGCACTTAGACAAAAAATGCCACGATAGGCCGGGTTCTATAGCGGCGCTTATCAAAGAAACGCC
27994018 GCTAATTTTG
Statistics
Matches: 163, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
212 99 0.61
213 36 0.22
214 18 0.11
215 10 0.06
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (215 bp):
CGGCGCTTATACAAAAAACGCCACTATAGATCGGCATCTCTAGCAGCGCTTATACAAAAAACGCC
ACTATAGATTGGGATCTTTCCTGGCGCTTATACAGAAAACGCCACTATAGATAGCGGTCTTTACC
GGCACTTAGACAAAAAATGCCACGATAGGCCGGGTTCTATAGCGGCGCTTATCAAAGAAACGCCA
CGATAGAGATGGCTCTTTAG
Found at i:27994476 original size:21 final size:21
Alignment explanation
Indices: 27994434--27994479 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
27994424 TTGAACCTCA
* *
27994434 GCTTCTCTCACTGCTGCCTCT
1 GCTTCTCTCACTGCCGCATCT
**
27994455 GCTTCTCTCGTTGCCGCATCT
1 GCTTCTCTCACTGCCGCATCT
27994476 GCTT
1 GCTT
27994480 TAAGTTGTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.39, G:0.17, T:0.39
Consensus pattern (21 bp):
GCTTCTCTCACTGCCGCATCT
Found at i:27994540 original size:87 final size:87
Alignment explanation
Indices: 27994362--27994529 Score: 241
Period size: 87 Copynumber: 1.9 Consensus size: 87
27994352 CTTCGTTGCA
* * *
27994362 GCCTCTGCTTCTCTCACTGCTGTATTTGCTTTAAGCTGCTACTGGAGTTCTTCATATTTTCGTTG
1 GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTACTGGAGTTCTTCATATTTTCGTTG
27994427 AACCTCAGCTTCTCTCACTGCT
66 AACCTCAGCTTCTCTCACTGCT
** * *
27994449 GCCTCTGCTTCTCTCGTTGCCGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-TT
1 GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTA-CTGGAGTTCTTCATAT-TTTCGT
27994512 TGAACCTCAGCTTCTCTC
64 TGAACCTCAGCTTCTCTC
27994530 GATGTTGCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 2 0.03
87 67 0.93
88 3 0.04
ACGTcount: A:0.13, C:0.29, G:0.17, T:0.42
Consensus pattern (87 bp):
GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTACTGGAGTTCTTCATATTTTCGTTG
AACCTCAGCTTCTCTCACTGCT
Found at i:27999845 original size:9 final size:9
Alignment explanation
Indices: 27999819--28000056 Score: 111
Period size: 9 Copynumber: 27.7 Consensus size: 9
27999809 TTATTCAGTG
27999819 GTAAGTTAT
1 GTAAGTTAT
27999828 GT-A-TTAT
1 GTAAGTTAT
*
27999835 GTAACTTAT
1 GTAAGTTAT
27999844 GTAAGTTA-
1 GTAAGTTAT
*
27999852 -TAATATTAAT
1 GTAA-GTT-AT
*
27999862 GTATGTTAT
1 GTAAGTTAT
27999871 GTAAG-T-T
1 GTAAGTTAT
27999878 GTAAGTTAT
1 GTAAGTTAT
27999887 GT-A-TTAT
1 GTAAGTTAT
* *
27999894 GTAACTTCT
1 GTAAGTTAT
*
27999903 ATAAGTTAT
1 GTAAGTTAT
* *
27999912 -CAAATTAAT
1 GTAAGTT-AT
*
27999921 GTATGTTAT
1 GTAAGTTAT
27999930 GTAAG-T-T
1 GTAAGTTAT
27999937 GTAAGTTAT
1 GTAAGTTAT
*
27999946 -TATGTATTAT
1 GTAAG--TTAT
*
27999956 GTATGTTAT
1 GTAAGTTAT
27999965 GTAAG-T-T
1 GTAAGTTAT
27999972 GTAAGTTAT
1 GTAAGTTAT
*
27999981 -TATGTATTAT
1 GTAAG--TTAT
*
27999991 GTATGTTAT
1 GTAAGTTAT
28000000 GTAAG-T-T
1 GTAAGTTAT
28000007 GTAAGTTAT
1 GTAAGTTAT
*
28000016 -TATGTATTAT
1 GTAAG--TTAT
28000026 GTAAGTTAT
1 GTAAGTTAT
* *
28000035 GTATGCTAT
1 GTAAGTTAT
28000044 GT-A-TTAT
1 GTAAGTTAT
28000051 GTAAGT
1 GTAAGT
28000057 GTAGTGACCT
Statistics
Matches: 175, Mismatches: 25, Indels: 58
0.68 0.10 0.22
Matches are distributed among these distances:
7 44 0.25
8 28 0.16
9 73 0.42
10 17 0.10
11 13 0.07
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:27999961 original size:35 final size:35
Alignment explanation
Indices: 27999919--28000037 Score: 229
Period size: 35 Copynumber: 3.4 Consensus size: 35
27999909 TATCAAATTA
27999919 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
27999954 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
27999989 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
*
28000024 ATGTAAGTTATGTA
1 ATGTATGTTATGTA
28000038 TGCTATGTAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.50
Consensus pattern (35 bp):
ATGTATGTTATGTAAGTTGTAAGTTATTATGTATT
Found at i:27999985 original size:59 final size:60
Alignment explanation
Indices: 27999824--28000037 Score: 243
Period size: 59 Copynumber: 3.4 Consensus size: 60
27999814 CAGTGGTAAG
27999824 TTATGTATTATGTAACTTATGTAAGTTATAATATTAATGTATGTTATGTAAGTTGTAAG--
1 TTATGTATTATGTAACTTATGTAAGTTATAA-ATTAATGTATGTTATGTAAGTTGTAAGTT
* *
27999883 TTATGTATTATGTAACTTCTATAAGTTATCAAATTAATGTATGTTATGTAAGTTGTAAGTT
1 TTATGTATTATGTAACTTATGTAAGTTAT-AAATTAATGTATGTTATGTAAGTTGTAAGTT
** *
27999944 ATTATGTATTATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTATGTTATGTAAGTTGT
1 -TTATGTATTATGTAACTTATGTAAG-T-T-A--TA-AAT-TA--ATGTATGTTATGTAAGTTGT
28000009 AAGTT
56 AAGTT
*
28000014 ATTATGTATTATGTAAGTTATGTA
1 -TTATGTATTATGTAACTTATGTA
28000038 TGCTATGTAT
Statistics
Matches: 134, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
59 54 0.40
60 2 0.01
62 21 0.16
63 1 0.01
64 1 0.01
65 1 0.01
66 1 0.01
67 3 0.02
68 2 0.01
70 48 0.36
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (60 bp):
TTATGTATTATGTAACTTATGTAAGTTATAAATTAATGTATGTTATGTAAGTTGTAAGTT
Found at i:28000050 original size:16 final size:15
Alignment explanation
Indices: 27999946--28000053 Score: 57
Period size: 16 Copynumber: 6.9 Consensus size: 15
27999936 TGTAAGTTAT
27999946 TATGTATTATGTATG
1 TATGTATTATGTATG
27999961 TTATGTA--A-GT-TG
1 -TATGTATTATGTATG
*
27999973 TAAGTTATTATGTAT-
1 TATG-TATTATGTATG
27999988 TATGTATGTTATGTAAGTTG
1 TATGTA--TTATGT-A--TG
*
28000008 TAAGTTATTATGTAT-
1 TATG-TATTATGTATG
28000023 TATGTAAGTTATGTATG
1 TATGT-A-TTATGTATG
28000040 CTATGTATTATGTA
1 -TATGTATTATGTA
28000054 AGTGTAGTGA
Statistics
Matches: 72, Mismatches: 4, Indels: 32
0.67 0.04 0.30
Matches are distributed among these distances:
11 3 0.04
12 4 0.06
13 2 0.03
14 5 0.07
15 9 0.12
16 29 0.40
17 2 0.03
18 6 0.08
19 7 0.10
20 3 0.04
21 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (15 bp):
TATGTATTATGTATG
Found at i:28002984 original size:29 final size:30
Alignment explanation
Indices: 28002963--28003049 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
28002953 GTAATTTACG
*
28002963 AAATATTAGGGGTCAAAGTGTAATTTAAAGA
1 AAAT-TTAGGGGTCAAAATGTAATTTAAAGA
* *
28002994 AAATTTTGGGGTCAAAATGTAAATTTTAA-A
1 AAATTTAGGGGTCAAAATGT-AATTTAAAGA
* ** *
28003024 AAGTAGAGGGGTTAAAATGTAATTTA
1 AAATTTAGGGGTCAAAATGTAATTTA
28003050 TATTTTTTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 5 0.11
30 30 0.65
31 11 0.24
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.32
Consensus pattern (30 bp):
AAATTTAGGGGTCAAAATGTAATTTAAAGA
Found at i:28003070 original size:13 final size:14
Alignment explanation
Indices: 28003045--28003085 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
28003035 TTAAAATGTA
28003045 ATTTATATTTTTTGT
1 ATTTAT-TTTTTTGT
*
28003060 A-TTATTTTTTTAT
1 ATTTATTTTTTTGT
28003073 ATTTATTTTTTTG
1 ATTTATTTTTTTG
28003086 AGATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 8 0.35
14 14 0.61
15 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (14 bp):
ATTTATTTTTTTGT
Found at i:28003116 original size:25 final size:25
Alignment explanation
Indices: 28003062--28003116 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
28003052 TTTTTTGTAT
* * *
28003062 TATTTTTTTATATTTATTTTTTTGA
1 TATTTTTTTATATCTATTTTATTAA
*
28003087 GATTTTTTTACTA-CTATTTTATTAA
1 TATTTTTTTA-TATCTATTTTATTAA
28003112 TATTT
1 TATTT
28003117 AAAACAGCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (25 bp):
TATTTTTTTATATCTATTTTATTAA
Found at i:28004133 original size:1 final size:1
Alignment explanation
Indices: 28004123--28004217 Score: 64
Period size: 1 Copynumber: 95.0 Consensus size: 1
28004113 TTCATCTTGA
* * * * * * * * * *
28004123 TTTTTCTTTTTTTCTTTTTTTTGTGTTTTTTCTTTTTGTTTGTTTTTTTTATTTTTCTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
28004188 TGTTTTTTTGTTTTTTTTTCTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
28004218 AGGCGTAATA
Statistics
Matches: 66, Mismatches: 28, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.85
Consensus pattern (1 bp):
T
Found at i:28004158 original size:25 final size:23
Alignment explanation
Indices: 28004123--28004217 Score: 77
Period size: 26 Copynumber: 3.8 Consensus size: 23
28004113 TTCATCTTGA
28004123 TTTTTCTTTTTTTCTTTTTTTTGTGT
1 TTTTTC-TTTTTT-TTTTTTTTGT-T
28004149 TTTTTCTTTTTGTTTGTTTTTT-TT
1 TTTTTCTTTTT-TTT-TTTTTTGTT
28004173 ATTTTTCTTCTTTTTTGTTTTTTTGTT
1 -TTTTTC-T-TTTTTT-TTTTTTTGTT
* *
28004200 TTTTT-TTCTGTTTTTTTT
1 TTTTTCTTTTTTTTTTTTT
28004218 AGGCGTAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
22 6 0.10
23 4 0.07
24 2 0.03
25 14 0.23
26 27 0.45
27 7 0.12
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.85
Consensus pattern (23 bp):
TTTTTCTTTTTTTTTTTTTTGTT
Found at i:28004204 original size:18 final size:17
Alignment explanation
Indices: 28004123--28004206 Score: 80
Period size: 17 Copynumber: 4.9 Consensus size: 17
28004113 TTCATCTTGA
*
28004123 TTTTTCTTTTTTTCTTTT
1 TTTTTGTTTTTTT-TTTT
*
28004141 TTTTGTGTTTTTTCTTTT
1 TTTT-TGTTTTTTTTTTT
* *
28004159 TGTTTGTTTTTTTTATT
1 TTTTTGTTTTTTTTTTT
* * *
28004176 TTTCT-TCTTTTTTGTT
1 TTTTTGTTTTTTTTTTT
28004192 TTTTTGTTTTTTTTT
1 TTTTTGTTTTTTTTT
28004207 CTGTTTTTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
16 13 0.25
17 21 0.40
18 11 0.21
19 7 0.13
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.86
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTTT
Found at i:28018665 original size:16 final size:16
Alignment explanation
Indices: 28018646--28018698 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 16
28018636 GCTGCTGCGT
28018646 TTTTGTTTTGCTTCTC
1 TTTTGTTTTGCTTCTC
* *
28018662 ---T-TTTTGTTTCAC
1 TTTTGTTTTGCTTCTC
28018674 TTTTGTTTTGCTTCTC
1 TTTTGTTTTGCTTCTC
28018690 TTTTTGTTT
1 -TTTTGTTT
28018699 CACTTTCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 9
0.68 0.10 0.22
Matches are distributed among these distances:
12 9 0.32
13 1 0.04
15 1 0.04
16 9 0.32
17 8 0.29
ACGTcount: A:0.02, C:0.15, G:0.11, T:0.72
Consensus pattern (16 bp):
TTTTGTTTTGCTTCTC
Found at i:28018667 original size:17 final size:17
Alignment explanation
Indices: 28018645--28018698 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
28018635 NGCTGCTGCG
28018645 TTTTTGTTTTGCTTCTC
1 TTTTTGTTTTGCTTCTC
*
28018662 TTTTTG---T--TTCAC
1 TTTTTGTTTTGCTTCTC
28018674 -TTTTGTTTTGCTTCTC
1 TTTTTGTTTTGCTTCTC
28018690 TTTTTGTTT
1 TTTTTGTTT
28018699 CACTTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
11 5 0.17
12 4 0.14
14 2 0.07
16 4 0.14
17 14 0.48
ACGTcount: A:0.02, C:0.15, G:0.11, T:0.72
Consensus pattern (17 bp):
TTTTTGTTTTGCTTCTC
Found at i:28018686 original size:28 final size:28
Alignment explanation
Indices: 28018646--28018704 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
28018636 GCTGCTGCGT
28018646 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
1 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
28018674 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
1 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
28018702 TTT
1 TTT
28018705 CTCTTGGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.03, C:0.17, G:0.10, T:0.69
Consensus pattern (28 bp):
TTTTGTTTTGCTTCTCTTTTTGTTTCAC
Found at i:28018714 original size:28 final size:28
Alignment explanation
Indices: 28018646--28018716 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
28018636 GCTGCTGCGT
* *
28018646 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
1 TTTTGCTTGGCTTCTCTTTTTGTTTCAC
* *
28018674 TTTTGTTTTGCTTCTCTTTTTGTTTCAC
1 TTTTGCTTGGCTTCTCTTTTTGTTTCAC
28018702 TTTCT-CTTGGCTTCT
1 TTT-TGCTTGGCTTCT
28018717 AGGTGGTGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.03, C:0.20, G:0.11, T:0.66
Consensus pattern (28 bp):
TTTTGCTTGGCTTCTCTTTTTGTTTCAC
Found at i:28018958 original size:29 final size:30
Alignment explanation
Indices: 28018937--28019023 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
28018927 GTAATTTACG
*
28018937 AAATATTAGGGGTCAAAGTGTAATTTAAAGA
1 AAAT-TTAGGGGTCAAAATGTAATTTAAAGA
* *
28018968 AAATTTTGGGGTCAAAATGTAAATTTTAA-A
1 AAATTTAGGGGTCAAAATGT-AATTTAAAGA
* ** *
28018998 AACTAGAGGGGTTAAAATGTAATTTA
1 AAATTTAGGGGTCAAAATGTAATTTA
28019024 TATTTTTTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 5 0.11
30 30 0.65
31 11 0.24
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (30 bp):
AAATTTAGGGGTCAAAATGTAATTTAAAGA
Found at i:28019041 original size:12 final size:13
Alignment explanation
Indices: 28019024--28019056 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
28019014 ATGTAATTTA
*
28019024 TATTTTTTGTA-T
1 TATTTTTTATATT
28019036 TATTTTTTATATT
1 TATTTTTTATATT
28019049 TATTTTTT
1 TATTTTTT
28019057 TTGAGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TATTTTTTATATT
Found at i:28019457 original size:23 final size:24
Alignment explanation
Indices: 28019404--28019458 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
28019394 AAATTTTAAT
*
28019404 AAATATATATTAAAACTGTATATA
1 AAATATATATCAAAACTGTATATA
*
28019428 AATATATATATCAAAGA-TGT-TTTA
1 AA-ATATATATCAAA-ACTGTATATA
28019452 AAATATA
1 AAATATA
28019459 ACCTTGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 5 0.19
24 7 0.26
25 14 0.52
26 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (24 bp):
AAATATATATCAAAACTGTATATA
Found at i:28021995 original size:25 final size:26
Alignment explanation
Indices: 28021966--28022017 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
28021956 TATCGTAGAC
*
28021966 ATTAACCATAGATC-TTAAACCC-TAA
1 ATTAACCATA-AACATTAAACCCGTAA
28021991 ATTAACCATAAACATTAAACCCGTAA
1 ATTAACCATAAACATTAAACCCGTAA
28022017 A
1 A
28022018 CCACAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 18 0.75
26 4 0.17
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (26 bp):
ATTAACCATAAACATTAAACCCGTAA
Found at i:28022991 original size:113 final size:112
Alignment explanation
Indices: 28022874--28023412 Score: 301
Period size: 114 Copynumber: 4.7 Consensus size: 112
28022864 AGCAGGCTAT
* *
28022874 AGCGGCGTTTTACTGAAGCGCCACTATTGGATCTATGCCTCATTTTTAAACGCTGCGTTTTGATT
1 AGCGGCGTTTTACTGAAGCGCCACTATTGGA-CTATGCCTCAATATTAAACGCTGCGTTTTGATT
*
28022939 CACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTG-TGATTC
65 CACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGCT-CTTC
* * * ** ** * *
28022987 AGCGGCGTTTCTTCGGAAGCGCCACTAATTGTACTATATCTCAATATTGTACGCTGCGTATTGTT
1 AGCGGCGTTT-TACTGAAGCGCCACT-ATTGGACTATGCCTCAATATTAAACGCTGCGTTTTGAT
* * * ** **** * *
28023052 TAACATTTTTTGTGGCGGTTACAAACAAACGCCGCTAATTCTGCTCTAT-
64 TCACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGCTCT-TC
* * * * * * * *
28023101 AGTGGCGTTTT--TAGAATGCGCCGCTACTGCCACTATTCCTGAATATTAATCGATGCGTTTTG-
1 AGCGGCGTTTTACT-GAA-GCGCCACTATTG-GACTATGCCTCAATATTAAACGCTGCGTTTTGA
* ** * * * * * *
28023163 -TCAGAT-TTATTACGGCG-TTTTTCTTTAAAATCGCCACTAATGATGCTCTTT
63 TTCACATATT-TTGTGGCGCTTGTACTTT---AGCGCCGCTAATGCTGCTCTTC
* * *
28023214 TGCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTC-AT-TTCCAAACGCTGCGTTTTTT
1 AGCGGCGTTTTACTGAAGCGCCACTATTGGA-CTATGCCTCAATATT--AAACGCTGCG-TTTTG
* *
28023277 ATTCACATATTTTGTGGCGCTTGTACTTTAGTGCCGCTAATGTTG-TGCTTC
62 ATTCACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGCT-CTTC
** * * ** * * *
28023328 AGCGGCGTTTCTAGGGAAGTGCCACTAATTGTACTATAG-CTCAATATTGTATGCTGCGTATTGT
1 AGCGGCGTTT-TACTGAAGCGCCACT-ATTGGACTAT-GCCTCAATATTAAACGCTGCGTTTTGA
* * *
28023392 TTAACATTTTTTATGGCGCTT
63 TTCACATATTTTGTGGCGCTT
28023413 ACAAAAAAAC
Statistics
Matches: 312, Mismatches: 86, Indels: 55
0.69 0.19 0.12
Matches are distributed among these distances:
110 4 0.01
111 12 0.04
112 10 0.03
113 92 0.29
114 131 0.42
115 33 0.11
116 19 0.06
117 11 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (112 bp):
AGCGGCGTTTTACTGAAGCGCCACTATTGGACTATGCCTCAATATTAAACGCTGCGTTTTGATTC
ACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGCTCTTC
Found at i:28023299 original size:341 final size:340
Alignment explanation
Indices: 28022875--28023584 Score: 1186
Period size: 341 Copynumber: 2.1 Consensus size: 340
28022865 GCAGGCTATA
* **
28022875 GCGGCGTTTTACTGAAGCGCCACTATTGGATCTATGCCTCATTTTTAAACGCTGCGTTTTGATTC
1 GCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTCATTTCCAAACGCTGCGTTTTGATTC
*
28022940 ACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGTGATTCAGCGGCGTTTCTTCGGAA
66 ACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGTGATTCAGCGGCGTTTCTACGGAA
* * *
28023005 GCGCCACTAATTGTACTATATCTCAATATTGTACGCTGCGTATTGTTTAACATTTTTTGTGGCGG
131 GCGCCACTAATTGTACTATAGCTCAATATTGTACGCTGCGTATTGTTTAACATTTTTTATGGCGC
* *
28023070 TTACAAACAAACGCCGCTAATTCTGCTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCCACT
196 TTACAAAAAAACGCCGCTAATTCTACTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCCACT
*
28023135 ATTCCTGAATATTAATCGATGCGTTTTGTCAGATTTATTACGGCGTTTTTCTTTAAAATCGCCAC
261 ATTCCTGAATATTAAACGATGCGTTTTGTCAGATTTATTACGGCGTTTTTCTTTAAAATCGCCAC
* *
28023200 TAATGATGCTCTTTT
326 TAAAGATGCTCGTTT
*
28023215 GCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTCATTTCCAAACGCTGCGTTTTTTATT
1 GCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTCATTTCCAAACGCTGCG-TTTTGATT
* * * *
28023280 CACATATTTTGTGGCGCTTGTACTTTAGTGCCGCTAATGTTGTGCTTCAGCGGCGTTTCTAGGGA
65 CACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGTGATTCAGCGGCGTTTCTACGGA
* *
28023345 AGTGCCACTAATTGTACTATAGCTCAATATTGTATGCTGCGTATTGTTTAACATTTTTTATGGCG
130 AGCGCCACTAATTGTACTATAGCTCAATATTGTACGCTGCGTATTGTTTAACATTTTTTATGGCG
*
28023410 CTTACAAAAAAACGCCGCTAATTCTACTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCTAC
195 CTTACAAAAAAACGCCGCTAATTCTACTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCCAC
* *
28023475 TATTCCTGAATATTAAACGATGCGTTTTGTTAGATTTATTACGGCGTTTTTGTTTAAAATCGCCA
260 TATTCCTGAATATTAAACGATGCGTTTTGTCAGATTTATTACGGCGTTTTTCTTTAAAATCGCCA
28023540 CTAAAGATGCTCGTTT
325 CTAAAGATGCTCGTTT
* *
28023556 GCGGCGTTTTCCTAGAAGCGCCGCTATTG
1 GCGGCGTTTTAC-AGAAGCGCCACTATTG
28023585 CGGGATCTTT
Statistics
Matches: 344, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
340 53 0.15
341 276 0.80
342 15 0.04
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (340 bp):
GCGGCGTTTTACAGAAGCGCCACTATTGGATCTATGCCTCATTTCCAAACGCTGCGTTTTGATTC
ACATATTTTGTGGCGCTTGTACTTTAGCGCCGCTAATGCTGTGATTCAGCGGCGTTTCTACGGAA
GCGCCACTAATTGTACTATAGCTCAATATTGTACGCTGCGTATTGTTTAACATTTTTTATGGCGC
TTACAAAAAAACGCCGCTAATTCTACTCTATAGTGGCGTTTTTAGAATGCGCCGCTACTGCCACT
ATTCCTGAATATTAAACGATGCGTTTTGTCAGATTTATTACGGCGTTTTTCTTTAAAATCGCCAC
TAAAGATGCTCGTTT
Found at i:28024123 original size:42 final size:42
Alignment explanation
Indices: 28023980--28024186 Score: 244
Period size: 42 Copynumber: 5.0 Consensus size: 42
28023970 ACAACTCGCA
* * * * * *
28023980 CAATGCC-ATATCCCAGATATGATCTTACATGCTATCATATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACG-AATCACATAT
* *
28024022 CGATGCCAATAG--CCAG-CTATGGTCTTACACGAATCTC-TAT
1 CAATGCCAAT-GTCCCAGAC-ATGGTCTTACACGAATCACATAT
*
28024062 CAATGGCAATGTCCCAGACATGGTCTTACACGAATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAATCACATAT
*
28024104 CAATGCCAATGTCCTAGACATGGTCTTACACGAATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAATCACATAT
*
28024146 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACG-AATCACAT
28024187 CTCAGTATCC
Statistics
Matches: 142, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 11 0.08
41 25 0.18
42 95 0.67
43 10 0.07
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (42 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAATCACATAT
Found at i:28026344 original size:23 final size:23
Alignment explanation
Indices: 28026301--28026344 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
28026291 GGGTTGCATT
* *
28026301 TTGGACTTCTTATTTTTCTTGGC
1 TTGGACTTCTTACTTTCCTTGGC
28026324 TTGGACTGTCTT-CTTTCCTTG
1 TTGGACT-TCTTACTTTCCTTG
28026345 AGTAACCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.07, C:0.20, G:0.18, T:0.55
Consensus pattern (23 bp):
TTGGACTTCTTACTTTCCTTGGC
Found at i:28029521 original size:16 final size:16
Alignment explanation
Indices: 28029473--28029524 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
28029463 ATTTGGAACA
* *
28029473 ATTTAGAGTTTGAATA
1 ATTTTGAGTTTGAATT
*
28029489 ATTTTGAGATT-AGATT
1 ATTTTGAGTTTGA-ATT
*
28029505 ATTTTGTGTTTGAATT
1 ATTTTGAGTTTGAATT
28029521 ATTT
1 ATTT
28029525 AGATTCACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (16 bp):
ATTTTGAGTTTGAATT
Found at i:28029918 original size:29 final size:31
Alignment explanation
Indices: 28029878--28029941 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 31
28029868 TAATAAAGAT
* *
28029878 AAAA-TTGTATTTTAGTCTCT-CAAATTATA
1 AAAATTTGTATTTAAGTCTCTAAAAATTATA
* *
28029907 AAAATTTG-ATTTAATTCTTTAAAAATTATA
1 AAAATTTGTATTTAAGTCTCTAAAAATTATA
28029937 AAAAT
1 AAAAT
28029942 ATAGACTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (31 bp):
AAAATTTGTATTTAAGTCTCTAAAAATTATA
Found at i:28035008 original size:22 final size:24
Alignment explanation
Indices: 28034983--28035026 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
28034973 AACCCTGGTA
28034983 TAATTTT-TC-TCAGAATGAAGTT
1 TAATTTTGTCTTCAGAATGAAGTT
*
28035005 TAATTTTGTCTTGAGAATGAAG
1 TAATTTTGTCTTCAGAATGAAG
28035027 AAAGGACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (24 bp):
TAATTTTGTCTTCAGAATGAAGTT
Found at i:28042278 original size:31 final size:33
Alignment explanation
Indices: 28042240--28042300 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
28042230 TCTTGTTTCA
*
28042240 AAAACATA-AAAAATTATGTTAAAA-AAATTGG
1 AAAACATAGAAAAACTATGTTAAAAGAAATTGG
28042271 AAAACATAGAAAAACTATGTTAAAAGAAAT
1 AAAACATAGAAAAACTATGTTAAAAGAAAT
28042301 GGAGAAGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 8 0.30
32 15 0.56
33 4 0.15
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (33 bp):
AAAACATAGAAAAACTATGTTAAAAGAAATTGG
Found at i:28042409 original size:61 final size:62
Alignment explanation
Indices: 28042341--28042463 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
28042331 GAAGAGAATG
*
28042341 GGAAAACAAAG-AAAAAAAGAAAGTCAAAAGAACATAAAAAAATTAAATTGCTCAAAACGAA
1 GGAAAACAAAGAAAAAAAAGAAAGTCAAAAGAACACAAAAAAATTAAATTGCTCAAAACGAA
*
28042402 GGAAAACAAAGAAAAAAAAGAAAGTTAAAAGAACACAAAAAAATTAAATTGCTCAAAACGAA
1 GGAAAACAAAGAAAAAAAAGAAAGTCAAAAGAACACAAAAAAATTAAATTGCTCAAAACGAA
28042464 AAAATATAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 11 0.19
62 48 0.81
ACGTcount: A:0.66, C:0.10, G:0.13, T:0.11
Consensus pattern (62 bp):
GGAAAACAAAGAAAAAAAAGAAAGTCAAAAGAACACAAAAAAATTAAATTGCTCAAAACGAA
Found at i:28045774 original size:39 final size:39
Alignment explanation
Indices: 28045720--28045879 Score: 320
Period size: 39 Copynumber: 4.1 Consensus size: 39
28045710 TGTTAAAGAG
28045720 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
1 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
28045759 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
1 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
28045798 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
1 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
28045837 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
1 AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
28045876 AAGA
1 AAGA
28045880 TACTATTGCT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 121 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (39 bp):
AAGAATCACTCATTTCACTACATACGAATTCAAATCCAT
Found at i:28051846 original size:25 final size:27
Alignment explanation
Indices: 28051813--28051863 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
28051803 AAATATAGGT
*
28051813 AAAATTTTAGAAAATTAAAA-AATATA
1 AAAATTTAAGAAAATTAAAATAATATA
28051839 AAAATTTAAGAAAATTAAAATAATA
1 AAAATTTAAGAAAATTAAAATAATA
28051864 GTTTCATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (27 bp):
AAAATTTAAGAAAATTAAAATAATATA
Found at i:28052021 original size:18 final size:19
Alignment explanation
Indices: 28051993--28052031 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
28051983 TTTGTAAAAT
*
28051993 ATATATTTTTATTTTTTAA
1 ATATATTTTTATTTTTAAA
28052012 ATAT-TTTTTATTTTTAAA
1 ATATATTTTTATTTTTAAA
28052030 AT
1 AT
28052032 TTCAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATATTTTTATTTTTAAA
Found at i:28077726 original size:429 final size:429
Alignment explanation
Indices: 28076927--28077763 Score: 1334
Period size: 429 Copynumber: 2.0 Consensus size: 429
28076917 AAGTCAGAAT
* * *
28076927 AGGGGAACCCGAAATCATTCTGACCTTATCTCACAAAACTTATCATATCTCATAATTTACAACTC
1 AGGGGAACCCGAAATCATTCTAACCTTATCTCACAAAACTTATCATATCTCAAAATTTAAAACTC
* * * **
28076992 CATTGCTTACACTGTTTCTTCTATGGGAAAATACACTCAATAAGCTTTAATTTAATATTTTTTTC
66 CATTACTTACACAGTTTCTTCTATGAGAAAATACACTCAATAAAATTTAATTTAATATTTTTTTC
* * *
28077057 ATCCTCTAATTCAATTTATACGATTTTTGGTAAATTTTAAAAGTCAGACTACTGCTGCTTTCTCA
131 ATCCTCTAATTAAATTTATACGATTTTTGATAAATTTTAAAAGTCAGACTACTGCTGCTGTCTCA
* *
28077122 AAACTATTTTAGTGTAAAATGTTGATAACTAAATTTATAACACTTTCCTTTCCTTTCTCTTCAAT
196 AAACTATTTTAGTGTAAAATATTGATAACTAAATTTATAACACCTTCCTTTCCTTTCTCTTCAAT
* * *
28077187 ATTTTCCATCACTTTCTCTTATTTCCCTTTACTAACATATCAAGAACATATAACCTTATATAATA
261 ATTTTCCATCACTTCCTCTTATTTCCCTTTACTAACATAACAAGAACATAAAACCTTATATAATA
28077252 AAACCCTACATTAACATCAATCTCATACTTTTTCAATAATATCAAACTCAAAAATATATTGAAAT
326 AAACCCTACATTAACATCAATCTCATACTTTTTCAATAATATCAAACTCAAAAATATATTGAAAT
28077317 CATGATGTTCTTACCTTGCTCAATTTTCAAAGTTAAAAC
391 CATGATGTTCTTACCTTGCTCAATTTTCAAAGTTAAAAC
* * *
28077356 AGGGGAACCCGAAATCATTCTAACCTTATCTCACAAAATTTATTATATCTCAAAATTTAAAATTC
1 AGGGGAACCCGAAATCATTCTAACCTTATCTCACAAAACTTATCATATCTCAAAATTTAAAACTC
* * * *
28077421 CATTACTTACACAGTTTCTTCTATGAGAAACTAGACTCAATAAAATTTAGTTTCATATTTTTTTC
66 CATTACTTACACAGTTTCTTCTATGAGAAAATACACTCAATAAAATTTAATTTAATATTTTTTTC
* * *
28077486 ATCCTCTAATTAAATTTATTA-GATTTTTGATGAATTTTCAAATTCAGACTACTGCTGCTGTCTC
131 ATCCTCTAATTAAATTTA-TACGATTTTTGATAAATTTTAAAAGTCAGACTACTGCTGCTGTCTC
*
28077550 AAAACTGTTTTAGTGTAAAATATTGATAACTAAATTTATAACACCTTCCTTTCCTTTCTCTTCAA
195 AAAACTATTTTAGTGTAAAATATTGATAACTAAATTTATAACACCTTCCTTTCCTTTCTCTTCAA
* *
28077615 TATTTTCCATCACTTCCTCTTATTTCCCTTTACTAAGATAACAAGAATATAAAACCTTATATAAT
260 TATTTTCCATCACTTCCTCTTATTTCCCTTTACTAACATAACAAGAACATAAAACCTTATATAAT
* * * * *
28077680 GAAACTCTACATTAACATTAATTTCCTACTTTTTCAATAATATCAAACTCAAAAATATATTGAAA
325 AAAACCCTACATTAACATCAATCTCATACTTTTTCAATAATATCAAACTCAAAAATATATTGAAA
* *
28077745 TCTTGATGTTCTTATCTTG
390 TCATGATGTTCTTACCTTG
28077764 TGCTATTGAT
Statistics
Matches: 371, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
429 369 0.99
430 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (429 bp):
AGGGGAACCCGAAATCATTCTAACCTTATCTCACAAAACTTATCATATCTCAAAATTTAAAACTC
CATTACTTACACAGTTTCTTCTATGAGAAAATACACTCAATAAAATTTAATTTAATATTTTTTTC
ATCCTCTAATTAAATTTATACGATTTTTGATAAATTTTAAAAGTCAGACTACTGCTGCTGTCTCA
AAACTATTTTAGTGTAAAATATTGATAACTAAATTTATAACACCTTCCTTTCCTTTCTCTTCAAT
ATTTTCCATCACTTCCTCTTATTTCCCTTTACTAACATAACAAGAACATAAAACCTTATATAATA
AAACCCTACATTAACATCAATCTCATACTTTTTCAATAATATCAAACTCAAAAATATATTGAAAT
CATGATGTTCTTACCTTGCTCAATTTTCAAAGTTAAAAC
Found at i:28078422 original size:25 final size:25
Alignment explanation
Indices: 28078388--28078440 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
28078378 TTAAGTATTT
28078388 ACTCTTGGGCCACAAAACTTTTCTC
1 ACTCTTGGGCCACAAAACTTTTCTC
28078413 ACTCTTGGGCCACAAAACTTTTCTC
1 ACTCTTGGGCCACAAAACTTTTCTC
28078438 ACT
1 ACT
28078441 TTTGCGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (25 bp):
ACTCTTGGGCCACAAAACTTTTCTC
Found at i:28081801 original size:841 final size:841
Alignment explanation
Indices: 28080180--28081861 Score: 3364
Period size: 841 Copynumber: 2.0 Consensus size: 841
28080170 AGATCAATAG
28080180 TTTTTCGTTTGCAGTTTACTATAGCATCATGCAGAGTTAACCAATCCATACCCAAAATTATATCA
1 TTTTTCGTTTGCAGTTTACTATAGCATCATGCAGAGTTAACCAATCCATACCCAAAATTATATCA
28080245 AACTCGTCGAATGGCAACAACATCAAATCAGCTGGAAAACAATAATCTCGAATCATCAACGGACA
66 AACTCGTCGAATGGCAACAACATCAAATCAGCTGGAAAACAATAATCTCGAATCATCAACGGACA
28080310 ATTCTTGCACACTTTGTTAACCAAAACACACCGGCCCAAGGGGTTTGATACTTTAATTTCGAACT
131 ATTCTTGCACACTTTGTTAACCAAAACACACCGGCCCAAGGGGTTTGATACTTTAATTTCGAACT
28080375 CAGTAGACTCAACATGTAGAGTCTTACTGAATACTAAAATCTCACACATATAAGAATGAGTCGAA
196 CAGTAGACTCAACATGTAGAGTCTTACTGAATACTAAAATCTCACACATATAAGAATGAGTCGAA
28080440 CCAGGATCAATCAATGCAATAACATTAGTATCATAAAGAGTGAAAGTACCAGTAATAACATCTGG
261 CCAGGATCAATCAATGCAATAACATTAGTATCATAAAGAGTGAAAGTACCAGTAATAACATCTGG
28080505 AGAAGAAGCCTCCTCTCGAGCACAGATGGCATATGCTCTGGCAAGTGCACGAGCCTCAGATTGAA
326 AGAAGAAGCCTCCTCTCGAGCACAGATGGCATATGCTCTGGCAAGTGCACGAGCCTCAGATTGAA
28080570 CTGTCGTGTCCTTTGTCCCTCTCTGACTACCACTAACATTACTCGTATGCCTGGGTGGTCTACCT
391 CTGTCGTGTCCTTTGTCCCTCTCTGACTACCACTAACATTACTCGTATGCCTGGGTGGTCTACCT
28080635 CGTACTGACACATTACTCGGTCTGGTACTCTGTACAGTATTTTGCTTGGCCACCATCGGACACTC
456 CGTACTGACACATTACTCGGTCTGGTACTCTGTACAGTATTTTGCTTGGCCACCATCGGACACTC
28080700 TCGAATAAAATGATCCTTTGATCCACACTTAAAGCAAGACCGATCATGAAATCTGCAATCTCCTA
521 TCGAATAAAATGATCCTTTGATCCACACTTAAAGCAAGACCGATCATGAAATCTGCAATCTCCTA
28080765 GATTCCATTTACCACAATGTTTGCACTCTGATCTATTTTGTCAAACATTACCCACACTAGCAACT
586 GATTCCATTTACCACAATGTTTGCACTCTGATCTATTTTGTCAAACATTACCCACACTAGCAACT
28080830 GAAGTAGCTCGTGAATTCACAGGGGGTCGATCTCGATCTTGTTTCGGAAACCCTACAGTAGCTTT
651 GAAGTAGCTCGTGAATTCACAGGGGGTCGATCTCGATCTTGTTTCGGAAACCCTACAGTAGCTTT
28080895 GGATCGGCTATGATCCTCTCTGAATTTCCTTGAGGTCAACTGGAGCGATTTACTAAATGATCTTT
716 GGATCGGCTATGATCCTCTCTGAATTTCCTTGAGGTCAACTGGAGCGATTTACTAAATGATCTTT
28080960 TATGGGAATCTCGAGCTTCATAGTCAGCTTTTCTCTTCTCTTTCCCAAGCTCCTCGGCTTT
781 TATGGGAATCTCGAGCTTCATAGTCAGCTTTTCTCTTCTCTTTCCCAAGCTCCTCGGCTTT
28081021 TTTTTCGTTTGCAGTTTACTATAGCATCATGCAGAGTTAACCAATCCATACCCAAAATTATATCA
1 TTTTTCGTTTGCAGTTTACTATAGCATCATGCAGAGTTAACCAATCCATACCCAAAATTATATCA
28081086 AACTCGTCGAATGGCAACAACATCAAATCAGCTGGAAAACAATAATCTCGAATCATCAACGGACA
66 AACTCGTCGAATGGCAACAACATCAAATCAGCTGGAAAACAATAATCTCGAATCATCAACGGACA
28081151 ATTCTTGCACACTTTGTTAACCAAAACACACCGGCCCAAGGGGTTTGATACTTTAATTTCGAACT
131 ATTCTTGCACACTTTGTTAACCAAAACACACCGGCCCAAGGGGTTTGATACTTTAATTTCGAACT
28081216 CAGTAGACTCAACATGTAGAGTCTTACTGAATACTAAAATCTCACACATATAAGAATGAGTCGAA
196 CAGTAGACTCAACATGTAGAGTCTTACTGAATACTAAAATCTCACACATATAAGAATGAGTCGAA
28081281 CCAGGATCAATCAATGCAATAACATTAGTATCATAAAGAGTGAAAGTACCAGTAATAACATCTGG
261 CCAGGATCAATCAATGCAATAACATTAGTATCATAAAGAGTGAAAGTACCAGTAATAACATCTGG
28081346 AGAAGAAGCCTCCTCTCGAGCACAGATGGCATATGCTCTGGCAAGTGCACGAGCCTCAGATTGAA
326 AGAAGAAGCCTCCTCTCGAGCACAGATGGCATATGCTCTGGCAAGTGCACGAGCCTCAGATTGAA
28081411 CTGTCGTGTCCTTTGTCCCTCTCTGACTACCACTAACATTACTCGTATGCCTGGGTGGTCTACCT
391 CTGTCGTGTCCTTTGTCCCTCTCTGACTACCACTAACATTACTCGTATGCCTGGGTGGTCTACCT
28081476 CGTACTGACACATTACTCGGTCTGGTACTCTGTACAGTATTTTGCTTGGCCACCATCGGACACTC
456 CGTACTGACACATTACTCGGTCTGGTACTCTGTACAGTATTTTGCTTGGCCACCATCGGACACTC
28081541 TCGAATAAAATGATCCTTTGATCCACACTTAAAGCAAGACCGATCATGAAATCTGCAATCTCCTA
521 TCGAATAAAATGATCCTTTGATCCACACTTAAAGCAAGACCGATCATGAAATCTGCAATCTCCTA
28081606 GATTCCATTTACCACAATGTTTGCACTCTGATCTATTTTGTCAAACATTACCCACACTAGCAACT
586 GATTCCATTTACCACAATGTTTGCACTCTGATCTATTTTGTCAAACATTACCCACACTAGCAACT
28081671 GAAGTAGCTCGTGAATTCACAGGGGGTCGATCTCGATCTTGTTTCGGAAACCCTACAGTAGCTTT
651 GAAGTAGCTCGTGAATTCACAGGGGGTCGATCTCGATCTTGTTTCGGAAACCCTACAGTAGCTTT
28081736 GGATCGGCTATGATCCTCTCTGAATTTCCTTGAGGTCAACTGGAGCGATTTACTAAATGATCTTT
716 GGATCGGCTATGATCCTCTCTGAATTTCCTTGAGGTCAACTGGAGCGATTTACTAAATGATCTTT
28081801 TATGGGAATCTCGAGCTTCATAGTCAGCTTTTCTCTTCTCTTTCCCAAGCTCCTCGGCTTT
781 TATGGGAATCTCGAGCTTCATAGTCAGCTTTTCTCTTCTCTTTCCCAAGCTCCTCGGCTTT
28081862 ACAAGCTCGT
Statistics
Matches: 841, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
841 841 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (841 bp):
TTTTTCGTTTGCAGTTTACTATAGCATCATGCAGAGTTAACCAATCCATACCCAAAATTATATCA
AACTCGTCGAATGGCAACAACATCAAATCAGCTGGAAAACAATAATCTCGAATCATCAACGGACA
ATTCTTGCACACTTTGTTAACCAAAACACACCGGCCCAAGGGGTTTGATACTTTAATTTCGAACT
CAGTAGACTCAACATGTAGAGTCTTACTGAATACTAAAATCTCACACATATAAGAATGAGTCGAA
CCAGGATCAATCAATGCAATAACATTAGTATCATAAAGAGTGAAAGTACCAGTAATAACATCTGG
AGAAGAAGCCTCCTCTCGAGCACAGATGGCATATGCTCTGGCAAGTGCACGAGCCTCAGATTGAA
CTGTCGTGTCCTTTGTCCCTCTCTGACTACCACTAACATTACTCGTATGCCTGGGTGGTCTACCT
CGTACTGACACATTACTCGGTCTGGTACTCTGTACAGTATTTTGCTTGGCCACCATCGGACACTC
TCGAATAAAATGATCCTTTGATCCACACTTAAAGCAAGACCGATCATGAAATCTGCAATCTCCTA
GATTCCATTTACCACAATGTTTGCACTCTGATCTATTTTGTCAAACATTACCCACACTAGCAACT
GAAGTAGCTCGTGAATTCACAGGGGGTCGATCTCGATCTTGTTTCGGAAACCCTACAGTAGCTTT
GGATCGGCTATGATCCTCTCTGAATTTCCTTGAGGTCAACTGGAGCGATTTACTAAATGATCTTT
TATGGGAATCTCGAGCTTCATAGTCAGCTTTTCTCTTCTCTTTCCCAAGCTCCTCGGCTTT
Found at i:28083286 original size:41 final size:41
Alignment explanation
Indices: 28083227--28083511 Score: 500
Period size: 41 Copynumber: 7.0 Consensus size: 41
28083217 NNNNNNNNNC
*
28083227 TTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
*
28083268 TTATAACCTGATTTAGATCACCGGCACTTAGCCTGCTAGGT
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
*
28083309 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGT
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
*
28083350 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGT
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
*
28083391 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGT
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
28083432 TTATAACCTGACTTCAGATCA-CGGCACTTAGCCTGCTAGGT
1 TTATAACCTGA-TTCAGATCACCGGCACTTAGCCTGCTAGGT
*
28083473 TTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAG
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAG
28083512 ACTTAAAGTC
Statistics
Matches: 236, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
40 9 0.04
41 219 0.93
42 8 0.03
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (41 bp):
TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
Found at i:28083535 original size:123 final size:123
Alignment explanation
Indices: 28083227--28083565 Score: 492
Period size: 123 Copynumber: 2.8 Consensus size: 123
28083217 NNNNNNNNNC
* * *
28083227 TTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGATCACCGG
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGAATTAAATCACCGG
28083292 CACTTAGCCTGCTAGGTTTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGT
66 CACTTAGCCTGCTAGGTTTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGT
*
28083350 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG-ATTCAAATCACCG
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGAATT-AAATCACCG
*
28083414 GCACTTAGCCTGCTAGGTTTATAACCTGACTTCAGATCA-CGGCACTTAGCCTGCTAGGT
65 GCACTTAGCCTGCTAGGTTTATAACCTGA-TTCAAATCACCGGCACTTAGCCTGCTAGGT
* ** **
28083473 TTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAGACTTA-AAGTCC-GAATTATTTCACC
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAA--CCTGAATTAAATCACC
28083536 GGC-CTTAAGCCTGCTAGGTTT-TAAACCTGA
64 GGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
28083566 AAATTTCAAT
Statistics
Matches: 198, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
122 8 0.04
123 177 0.89
124 13 0.07
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (123 bp):
TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGAATTAAATCACCGG
CACTTAGCCTGCTAGGTTTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGT
Found at i:28083547 original size:82 final size:83
Alignment explanation
Indices: 28083227--28083565 Score: 487
Period size: 82 Copynumber: 4.1 Consensus size: 83
28083217 NNNNNNNNNC
* * *
28083227 TTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG-ATTTAGATCACCG
1 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGAATTCAGATCACCG
28083291 GCACTTAGCCTGCTAGGT
66 GCACTTAGCCTGCTAGGT
*
28083309 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG-ATTCAAATCACCG
1 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGAATTCAGATCACCG
28083373 GCACTTAGCCTGCTAGGT
66 GCACTTAGCCTGCTAGGT
*
28083391 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGACTTCAGATCA-CG
1 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGAATTCAGATCACCG
28083455 GCACTTAGCCTGCTAGGT
66 GCACTTAGCCTGCTAGGT
* * ** **
28083473 TTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAGACTTA-AAGTCC-GAATT-ATTTCAC
1 TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAA--CCTGAATTCAGATCAC
28083535 CGGC-CTTAAGCCTGCTAGGT
64 CGGCACTT-AGCCTGCTAGGT
28083555 TT-TAAACCTGA
1 TTAT-AACCTGA
28083566 AAATTTCAAT
Statistics
Matches: 238, Mismatches: 13, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
81 10 0.04
82 218 0.92
83 10 0.04
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (83 bp):
TTATAACCTGATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGAATTCAGATCACCG
GCACTTAGCCTGCTAGGT
Found at i:28086500 original size:14 final size:14
Alignment explanation
Indices: 28086481--28086507 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28086471 TTCTCTTTCA
28086481 CACTTGTATTTTAC
1 CACTTGTATTTTAC
28086495 CACTTGTATTTTA
1 CACTTGTATTTTA
28086508 TTTTATCATA
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:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAC
Found at i:28088505 original size:13 final size:13
Alignment explanation
Indices: 28088487--28088543 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
28088477 TACTCATTAC
28088487 AAGAGAAGCAAAG
1 AAGAGAAGCAAAG
*
28088500 AAGAGAAGGAAGAG
1 AAGAGAAGCAA-AG
*
28088514 CAAGAGAAGCAGAG
1 -AAGAGAAGCAAAG
*
28088528 AAGAGAAACAAA-
1 AAGAGAAGCAAAG
28088540 AAGA
1 AAGA
28088544 AGAGGTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
12 4 0.11
13 20 0.54
14 4 0.11
15 9 0.24
ACGTcount: A:0.61, C:0.07, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGAGAAGCAAAG
Found at i:28088546 original size:28 final size:28
Alignment explanation
Indices: 28088486--28088547 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
28088476 TTACTCATTA
** *
28088486 CAAGAGAAGCAAAGAAGAGAAGGAAGAG
1 CAAGAGAAGCAAAGAAGAGAACAAAAAG
*
28088514 CAAGAGAAGCAGAGAAGAGAAACAAAAAG
1 CAAGAGAAGCAAAGAAGAG-AACAAAAAG
28088543 -AAGAG
1 CAAGAG
28088548 GTTAATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.60, C:0.08, G:0.32, T:0.00
Consensus pattern (28 bp):
CAAGAGAAGCAAAGAAGAGAACAAAAAG
Found at i:28090900 original size:28 final size:28
Alignment explanation
Indices: 28090868--28090949 Score: 148
Period size: 28 Copynumber: 2.9 Consensus size: 28
28090858 CTTACTTATT
28090868 GCAAGAGAAGCAGAGAAGAA-AAAGAAGA
1 GCAAGAGAAGCAGAGAA-AAGAAAGAAGA
28090896 GCAAGAGAAGCAGAGAAAAGAAAGAAGA
1 GCAAGAGAAGCAGAGAAAAGAAAGAAGA
28090924 GCAAGAGAAGCAGAGAAAAGAAAGAA
1 GCAAGAGAAGCAGAGAAAAGAAAGAA
28090950 AGAAAAAAGG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
27 2 0.04
28 51 0.96
ACGTcount: A:0.61, C:0.07, G:0.32, T:0.00
Consensus pattern (28 bp):
GCAAGAGAAGCAGAGAAAAGAAAGAAGA
Found at i:28090935 original size:9 final size:9
Alignment explanation
Indices: 28090868--28090940 Score: 53
Period size: 9 Copynumber: 8.0 Consensus size: 9
28090858 CTTACTTATT
28090868 GCAAGAGAA
1 GCAAGAGAA
28090877 GC-AGAGAA
1 GCAAGAGAA
* *
28090885 GAAAAAGAAGA
1 GCAAGAG-A-A
28090896 GCAAGAGAA
1 GCAAGAGAA
*
28090905 GCAGAGAAAA
1 GCA-AGAGAA
*
28090915 GAAAGA-AGA
1 GCAAGAGA-A
28090924 GCAAGAGAA
1 GCAAGAGAA
28090933 GC-AGAGAA
1 GCAAGAGAA
28090941 AAGAAAGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
8 14 0.27
9 21 0.41
10 10 0.20
11 6 0.12
ACGTcount: A:0.59, C:0.08, G:0.33, T:0.00
Consensus pattern (9 bp):
GCAAGAGAA
Found at i:28094592 original size:92 final size:91
Alignment explanation
Indices: 28094424--28094593 Score: 216
Period size: 94 Copynumber: 1.8 Consensus size: 91
28094414 CCAAATCTCC
* *
28094424 TGCAATTTTTTTAAAAAAATAGTAATTTTTGTGAAATTATTTTTATGTCATTAACACTTAATTTT
1 TGCAATTTTTTTAAAAAAACAGTAATTTTTGTGAAATTATTTTTATGTCATTAACACATAATTTT
28094489 GGTAATTATTTTACCAAAATTCTAATT
66 GGTAA-TATTTTACCAAAATTCTAATT
* * * * * * *
28094516 TGCAATTTTTTTTAAAAAATACAGTGATTTTTGTGTAATTTTTTTCTTTGTTATTGATACATAAT
1 TGCAA-TTTTTTTAAAAAA-ACAGTAATTTTTGTGAAATTATTTT-TATGTCATTAACACATAAT
28094581 TTTGGTAAT-TTTT
63 TTTGGTAATATTTT
28094594 GTGAAGCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
92 5 0.08
93 17 0.26
94 22 0.33
95 22 0.33
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.52
Consensus pattern (91 bp):
TGCAATTTTTTTAAAAAAACAGTAATTTTTGTGAAATTATTTTTATGTCATTAACACATAATTTT
GGTAATATTTTACCAAAATTCTAATT
Found at i:28095408 original size:119 final size:120
Alignment explanation
Indices: 28095273--28095501 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 120
28095263 AGAAAAGTTT
* *
28095273 TGATTTTTTTCT-AAAAAAGAGAAAGTTTA-ATTTTTTTTAAAATAAAAATATGTTTTTTAGTGA
1 TGATTTTTTTCTAAAAAAAGAGAAAGTTTAGA---TTTTTAAAATAAAAATATATTTTTTAGTCA
28095336 TATTAAAGGAAAAGTTT-AAATTCTCAAAACAAAATTTTGAT-TTTTAAGAAAAATAG
63 TATTAAAGGAAAAGTTTAAAATTCTCAAAACAAAATTTTGATCTTTTAAGAAAAATAG
* * *
28095392 TGATTTTTTTTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATTTATTTTTTAGTCATT
1 TGATTTTTTTCT-AAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATA
* * * *
28095457 TTAAAGGAAAAGTTTAAAATTTTTAAAATAAACTTTTGATCTTTT
65 TTAAAGGAAAAGTTTAAAATTCTCAAAACAAAATTTTGATCTTTT
28095502 TCAACTATTT
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
119 54 0.56
120 20 0.21
121 21 0.22
122 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (120 bp):
TGATTTTTTTCTAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATAT
TAAAGGAAAAGTTTAAAATTCTCAAAACAAAATTTTGATCTTTTAAGAAAAATAG
Found at i:28098410 original size:4 final size:4
Alignment explanation
Indices: 28098395--28098436 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
28098385 GTGCCCTAAT
* * *
28098395 TTCA TT-A TTCA TTCA TTCA TTCA TCCT TTCA TTCA CTCA TTC
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTC
28098437 TCTCATTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (4 bp):
TTCA
Found at i:28112787 original size:18 final size:19
Alignment explanation
Indices: 28112763--28112806 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
28112753 CAATCCTTAA
* *
28112763 AAATTAATAT-AAGTATTT
1 AAATTAAGATAAAATATTT
*
28112781 TAATTAAGATAAAATATTT
1 AAATTAAGATAAAATATTT
28112800 AAATTAA
1 AAATTAA
28112807 CTAATGACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATTAAGATAAAATATTT
Found at i:28119780 original size:18 final size:18
Alignment explanation
Indices: 28119753--28119788 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
28119743 CCGATTTTGG
*
28119753 ACCTCTGGCCGCCACATA
1 ACCTCCGGCCGCCACATA
28119771 ACCTCCGGCCGCCACATA
1 ACCTCCGGCCGCCACATA
28119789 CGGTGGATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.47, G:0.17, T:0.14
Consensus pattern (18 bp):
ACCTCCGGCCGCCACATA
Found at i:28120343 original size:3 final size:3
Alignment explanation
Indices: 28120335--28120373 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
28120325 ATTTTTGTAA
28120335 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
28120374 CATCTTCACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.