Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold438
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: 1141244
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
File 7 of 7
Found at i:1040833 original size:79 final size:79
Alignment explanation
Indices: 1040750--1041026 Score: 322
Period size: 79 Copynumber: 3.5 Consensus size: 79
1040740 AAGTAAAAAC
* * **
1040750 GGGGTTGGAATAT-CCTCGATGGTGAAAAATCAAAATTTTGGAAGTAAAAATGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCT-AATGGTGAAAAATCAAAATTTTGGAAGTAAAAATAAGGTTGGAGTAT
1040814 CCCCTCAGAATTGAT
65 CCCCTCAGAATTGAT
* * * * * *
1040829 GGGGTTGGAGTATCCCTAATGGGGAGAAATCGATATTTTGGAATTGAAAATAAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCTAATGGTGAAAAATCAAAATTTTGGAAGTAAAAATAAGGTTGGAGTATC
1040894 CCCTCAGAATTGAT
66 CCCTCAGAATTGAT
* ** * * * * *
1040908 AGGGTTGGAGTATCCCCGATAGTGAAAAATCAATATTTTGGAAGTAAAAACAAGATTAGAGTATC
1 GGGGTTGGAGTATCCCTAATGGTGAAAAATCAAAATTTTGGAAGTAAAAATAAGGTTGGAGTATC
* *
1040973 CCCTCAGAAATAAT
66 CCCTCAGAATTGAT
* * *
1040987 GGGGGTAGAGTATCCCTAATGGTGAAAAATCGATAATTTT
1 GGGGTTGGAGTATCCCTAATGGTGAAAAATC-AAAATTTT
1041027 TTTCTGAAGA
Statistics
Matches: 164, Mismatches: 32, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 155 0.95
80 9 0.05
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCTAATGGTGAAAAATCAAAATTTTGGAAGTAAAAATAAGGTTGGAGTATC
CCCTCAGAATTGAT
Found at i:1045703 original size:20 final size:22
Alignment explanation
Indices: 1045680--1045730 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
1045670 CATTGCAAGT
1045680 TGTATTC-AT-ACATTTTCATG
1 TGTATTCGATAACATTTTCATG
*
1045700 TGTA-TCGCTAACATTTTCATG
1 TGTATTCGATAACATTTTCATG
1045721 TGTA-TCGATA
1 TGTATTCGATA
1045731 GAAATAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 5 0.19
21 20 0.74
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (22 bp):
TGTATTCGATAACATTTTCATG
Found at i:1046250 original size:39 final size:39
Alignment explanation
Indices: 1046207--1046286 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
1046197 ACCAAGCTTT
* *
1046207 AAGAAGTGATTTGAGATTCCAATAACTCATGCAATATTC
1 AAGAAGTGATCTAAGATTCCAATAACTCATGCAATATTC
*
1046246 AAGAAGTGATCTAAGTTTCCAATAACTCATGCAATATTC
1 AAGAAGTGATCTAAGATTCCAATAACTCATGCAATATTC
1046285 AA
1 AA
1046287 CAAAAGTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (39 bp):
AAGAAGTGATCTAAGATTCCAATAACTCATGCAATATTC
Found at i:1046726 original size:21 final size:21
Alignment explanation
Indices: 1046687--1046726 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1046677 GTTGGAGATA
*
1046687 GATGCAAACATCCCCTGAATT
1 GATGCAAACATCCCATGAATT
*
1046708 GATGCAAACATCTCATGAA
1 GATGCAAACATCCCATGAA
1046727 CATCGGTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (21 bp):
GATGCAAACATCCCATGAATT
Found at i:1065694 original size:20 final size:20
Alignment explanation
Indices: 1065669--1065722 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1065659 GTTACAAGCA
*
1065669 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1065689 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1065709 ATGTATCGATACAA
1 ATGTATCGATACAA
1065723 ACAGTGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1071962 original size:52 final size:52
Alignment explanation
Indices: 1071829--1071969 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
1071819 TGAAAAGTTA
1071829 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1071881 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
1071933 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
1071970 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1071976 original size:13 final size:13
Alignment explanation
Indices: 1071958--1071982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1071948 CAAAAATCAG
1071958 TGTATCGATACAA
1 TGTATCGATACAA
1071971 TGTATCGATACA
1 TGTATCGATACA
1071983 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1072065 original size:13 final size:13
Alignment explanation
Indices: 1072047--1072071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1072037 CAAAAAAATA
1072047 TGTATCGATACAT
1 TGTATCGATACAT
1072060 TGTATCGATACA
1 TGTATCGATACA
1072072 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1072067 original size:33 final size:33
Alignment explanation
Indices: 1072025--1072091 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1072015 AGTAGCTTAA
1072025 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1072058 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1072091 A
1 A
1072092 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1072170 original size:21 final size:21
Alignment explanation
Indices: 1072129--1072170 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1072119 GTTGGGACCT
*
1072129 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1072150 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1072171 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1072305 original size:7 final size:7
Alignment explanation
Indices: 1072293--1072317 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1072283 GATGAAATCA
1072293 AGGGTTT
1 AGGGTTT
1072300 AGGGTTT
1 AGGGTTT
1072307 AGGGTTT
1 AGGGTTT
1072314 AGGG
1 AGGG
1072318 ACGATGGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (7 bp):
AGGGTTT
Found at i:1073117 original size:171 final size:168
Alignment explanation
Indices: 1072922--1073306 Score: 611
Period size: 171 Copynumber: 2.3 Consensus size: 168
1072912 TTTTAGAGAT
1072922 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAA-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1072987 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
* *
1073052 TGTCAACGTGCTGATTCAAGGCCAGC-TACATTGAACT-TAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCTTA-A-AG-A-TGGAAA
* * *
1073093 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAG-TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
1073158 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1073223 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
*
1073262 -AT---GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
1073307 GTGCCAATGT
Statistics
Matches: 203, Mismatches: 8, Indels: 13
0.91 0.04 0.06
Matches are distributed among these distances:
164 40 0.20
165 1 0.00
168 3 0.01
169 4 0.02
170 2 0.01
171 151 0.74
172 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (168 bp):
GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAG
TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGAT
GTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
Found at i:1073139 original size:49 final size:49
Alignment explanation
Indices: 1072993--1073151 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
1072983 AAAAGTGATA
* * * * *
1072993 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
1073044 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1073097 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1073146 ATGATG
1 AAGATG
1073152 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1073254 original size:45 final size:42
Alignment explanation
Indices: 1073202--1073334 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 42
1073192 ACGATATTGG
* *
1073202 GCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCA
1 GCTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCA
* *
1073247 GCTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCA
1 GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
* * **
1073289 GC-TATA-TTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCA
1 GCTTAAAGATGGA---AAAGGTGCCAACATGCTGATTCAAGGCCA
1073332 GCT
1 GCT
1073335 ACATTGGACT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
40 4 0.05
41 3 0.04
42 23 0.30
43 34 0.45
44 1 0.01
45 11 0.14
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (42 bp):
GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
Found at i:1073283 original size:42 final size:42
Alignment explanation
Indices: 1073231--1073426 Score: 148
Period size: 43 Copynumber: 4.5 Consensus size: 42
1073221 GATGTCAACG
*
1073231 TGCTGATTCAAGGCCAGCTTAAAGATGGA-AAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTTAAA-ATGGATAAAGGTGCCAATA
* * *
1073273 TGCTGATTCAAGGCCAGC-TATATTGGACTTAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--TAAAGGTGCCAATA
* *
1073316 TGCTGATTCAAGGCCAGC-TACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--T-AA-A-G--G-TGCCAATA
* * * *
1073365 TGCTGATTCAAGGCCAGC-GATATTGGACTTAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--TAAAGGTGCCAATA
*
1073408 TGCTGAGTCAAGGCCAGCT
1 TGCTGATTCAAGGCCAGCT
1073427 ACATTGGACT
Statistics
Matches: 134, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
40 4 0.03
41 3 0.02
42 18 0.13
43 64 0.48
44 3 0.02
45 1 0.01
46 2 0.01
47 1 0.01
48 3 0.02
49 35 0.26
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (42 bp):
TGCTGATTCAAGGCCAGCTTAAAATGGATAAAGGTGCCAATA
Found at i:1073363 original size:49 final size:49
Alignment explanation
Indices: 1073265--1073928 Score: 942
Period size: 49 Copynumber: 13.8 Consensus size: 49
1073255 ATGGAAAATG
*
1073265 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
1073308 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1073357 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1073400 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* * *
1073449 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1073498 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* * *
1073547 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1073596 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1073645 TGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGA
* *
1073694 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* * *
1073743 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1073792 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1073841 TGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGA
* * *
1073890 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
1073929 GAGGGGTTGC
Statistics
Matches: 550, Mismatches: 55, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
43 70 0.13
44 5 0.01
45 2 0.00
46 3 0.01
47 1 0.00
48 6 0.01
49 461 0.84
50 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:1073525 original size:98 final size:98
Alignment explanation
Indices: 1073265--1073928 Score: 1199
Period size: 98 Copynumber: 6.9 Consensus size: 98
1073255 ATGGAAAATG
* *
1073265 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1073324 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1073357 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1073416 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1073449 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1073514 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1073547 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1073612 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
1073645 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1073710 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1073743 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1073808 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
1073841 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
1073906 CAAGGCCAGCTACATTGGGCTTA
66 CAAGGCCAGCTACATTGGACTTA
1073929 GAGGGGTTGC
Statistics
Matches: 560, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
92 128 0.23
96 1 0.00
98 431 0.77
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:1073970 original size:33 final size:34
Alignment explanation
Indices: 1073933--1073997 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
1073923 GGCTTAGAGG
1073933 GGTTGCCACCGACTTGTGTAGGCTTT-GGAAGAA
1 GGTTGCCACCGACTTGTGTAGGCTTTAGGAAGAA
*
1073966 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
1 GGTTGCCACCGACTTGTGTAGGCTTTAGGAAG
1073998 GGAGAAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.28
Consensus pattern (34 bp):
GGTTGCCACCGACTTGTGTAGGCTTTAGGAAGAA
Found at i:1074175 original size:96 final size:94
Alignment explanation
Indices: 1074002--1074388 Score: 432
Period size: 96 Copynumber: 4.0 Consensus size: 94
1073992 AGGAAGGGAG
1074002 AAAGA-TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAA
*
1074066 AAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
64 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * * * *
1074097 AAAGAGTGCCACGGAGTCGTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGTTATGGGC-TTAGA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAA
* *
1074161 AGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTT
64 AAGAAAAAG-GTGCCACGGAGTTGTGGGC-TTT
* * * *
1074194 AAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 --AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTA
*
1074258 AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
62 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
1074291 AAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTT
1 AAA-G---A-GTGCCACGGAGTTGTGGACTTAAA-AGGAAAAAAGTGCCACGGAGTTGTGGGCTT
1074356 T-AAAAG-----GGTGCCACGGAGTTGTGGGCTTT
60 TAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1074385 AAAG
1 AAAG
1074389 GAAAAGGTGG
Statistics
Matches: 256, Mismatches: 21, Indels: 32
0.83 0.07 0.10
Matches are distributed among these distances:
93 1 0.00
94 26 0.10
95 19 0.07
96 60 0.23
97 12 0.05
98 40 0.16
99 50 0.20
100 48 0.19
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.21
Consensus pattern (94 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAA
GAAAAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:1074219 original size:160 final size:155
Alignment explanation
Indices: 1074034--1074421 Score: 523
Period size: 160 Copynumber: 2.4 Consensus size: 155
1074024 CTTAAAAGGG
1074034 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
*
1074099 AGA-GTGCCACGGAGTCGTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGTTATGGGCTTAGAAG
65 AGAGGTGCCACGGAGTCGTGGGCTTT-AAAGG-AAAA-GGTGCCACGGAGTTATGGACTTA-AAG
*
1074163 -GAAAAAGAGTGCCACAGAGTTGTGGGCTTTT
126 AGAAAAA-AGTGCCACAGAATTGTGGGC-TTT
*
1074194 AAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--
* *
1074259 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAA
63 --A-AAG-AGGTGCCACGGAGTCGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTATGGACTTAA
*
1074324 AGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
124 AGA-GAAAAAAGTGCCACAGAATTGTGGGCTTT
* * * *
1074357 -AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAA-AAGGTGGCACGGAGTTGTGGGCTTTGAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1074420 GA
66 GA
1074422 AAAAATGCCA
Statistics
Matches: 207, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
154 1 0.00
155 3 0.01
160 85 0.41
161 6 0.03
162 26 0.13
163 6 0.03
164 40 0.19
165 13 0.06
166 6 0.03
167 21 0.10
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.21
Consensus pattern (155 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
GAGGTGCCACGGAGTCGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTATGGACTTAAAGAGAAA
AAAGTGCCACAGAATTGTGGGCTTT
Found at i:1074257 original size:194 final size:192
Alignment explanation
Indices: 1074002--1074419 Score: 530
Period size: 194 Copynumber: 2.1 Consensus size: 192
1073992 AGGAAGGGAG
*
1074002 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAG-TGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1074065 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA-G-A-GTGCCACGGAGTCGTGGGCTTTAAA
64 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAGGTGCCACGGAGTCGTGGAC-TTAAA
* *
1074127 -AGGAAAAAGGGTGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCT
128 GAGGAAAAA-AGTGCCACGGAATTATGGGCTT------AAAAAGAGTGCCACAGAGTTGTGGGC-
1074191 TTTAAA-A
185 TTTAAAGA
*
1074198 AAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
*
1074261 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAG
66 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG--AAGGTGCCACGGAGTCGTGGACTTAAAG
* * * * *
1074326 ATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
129 AGGAAAAAAGTGCCACGGAATTATGGGCTTAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA-GA
*
1074391 AAAGGTGGCACGGAGTTGTGGGCTTTGAA
1 AAA-GTGCCACGGAGTTGTGGGCTTTGAA
1074420 GAAAAAATGC
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
191 6 0.03
192 23 0.12
193 4 0.02
194 83 0.42
195 24 0.12
196 6 0.03
197 4 0.02
198 25 0.13
199 24 0.12
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.21
Consensus pattern (192 bp):
AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAGGTGCCACGGAGTCGTGGACTTAAAGAG
GAAAAAAGTGCCACGGAATTATGGGCTTAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAGA
Found at i:1074492 original size:32 final size:32
Alignment explanation
Indices: 1074002--1074571 Score: 447
Period size: 34 Copynumber: 17.8 Consensus size: 32
1073992 AGGAAGGGAG
* *
1074002 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAA--GAA
1074036 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTT--AAAGAA
* *
1074071 GAAGGTGCCACGGAGTTGTGGGCTTTAAAG--
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
*
1074101 --AG-TGCCACGGAGTCGTGGGCTTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAA-GAA
* *
1074132 AAAGGGTGCCACGGAGTTATGGGC-TTAGAAGGAA
1 AAA-GATGCCACGGAGTTGTGGGCTTTA-AA-GAA
* *
1074166 AAAGAGTGCCACAGAGTTGTGGGCTTTTAA-AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAGAA
1074198 AAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT--AAAGAA
* *
1074231 GAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT--AAAGAA
* * *
1074265 GAAGGTGCCACGGAGTTGTGGGCTTTAAAGGA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* *
1074297 AAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGA--A
* *
1074330 AAAAAGTGCCACGGAATTGTGGGCTTT----AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAGAA
* * *
1074359 AAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* * *
1074391 AAAGGTGGCACGGAGTTGTGGGCTTTGAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
** * * * * *
1074423 AAA-ATGCCATTGAGTCGTGGACCTT-GAGAC
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* * *
1074453 AAA-ATGCCACTGAGTCGTGGACTTTAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* * * * *
1074484 AAAGATGCCACTGAGTCGTGGACTTT-GAGAC
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* * *
1074515 AAA-ATGCCACTGAGTCGTGGACTTTAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* * *
1074546 AAAGATGCCACTGAGTCGTGGACTTT
1 AAAGATGCCACGGAGTTGTGGGCTTT
1074572 GAGCAGAGAT
Statistics
Matches: 457, Mismatches: 49, Indels: 62
0.80 0.09 0.11
Matches are distributed among these distances:
27 20 0.04
28 25 0.05
29 4 0.01
30 68 0.15
31 40 0.09
32 114 0.25
33 12 0.03
34 126 0.28
35 45 0.10
37 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.22
Consensus pattern (32 bp):
AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
Found at i:1074510 original size:93 final size:93
Alignment explanation
Indices: 1074163--1074602 Score: 277
Period size: 94 Copynumber: 4.6 Consensus size: 93
1074153 GGCTTAGAAG
* * * * * * *
1074163 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTTAAA-AAAAG-TGCCACGGAGTTGTGGGCTTTGAA
1 GAAAAAGA-TGCCACTGAGTCGTGGAC-TTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
1074226 AAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
64 AA-AA-AA--TGCCACTGAGTCGTGGACCTT--AAA
* * * * * * * * *
1074262 GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAGA
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAA-GAAAAGATGCCACTGAGTCGTGGACTT--TGA
* * * *
1074327 TGAAAAAAGTGCCACGGAATTGTGG-GCTT---
63 -GAAAAAA-TGCCACTGAGTCGTGGACCTTAAA
* * * * * * * * * * *
1074356 TAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGGCACGGAGTTGTGGGCTTTGAAG
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAA-GAAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
1074421 AAAAAATGCCATTGAGTCGTGGACCTT-GA
64 AAAAAATGCCACTGAGTCGTGGACCTTAAA
*
1074450 GACAAA-ATGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGA
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAAG-AAAAGATGCCACTGAGTCGTGGACTTTGAGA
* *
1074514 CAAAATGCCACTGAGTCGTGGACTTTAAA
65 AAAAATGCCACTGAGTCGTGGACCTTAAA
* * *
1074543 GAAAAAGATGCCACTGAGTCGTGGACTTT-GAGCAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
1074603 TTTTTTTTTT
Statistics
Matches: 287, Mismatches: 40, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
91 12 0.04
92 42 0.15
93 74 0.26
94 80 0.28
97 6 0.02
98 17 0.06
99 13 0.05
100 35 0.12
101 2 0.01
102 4 0.01
103 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.23
Consensus pattern (93 bp):
GAAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAA
AAAATGCCACTGAGTCGTGGACCTTAAA
Found at i:1074514 original size:62 final size:62
Alignment explanation
Indices: 1074403--1074602 Score: 314
Period size: 62 Copynumber: 3.2 Consensus size: 62
1074393 AGGTGGCACG
* * * * *
1074403 GAGTTGTGGGCTTTGAAGAAAAA-ATGCCATTGAGTCGTGGACCTTGAGACAAAATGCCACT
1 GAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
1074464 GAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
1 GAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
*
1074526 GAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGATTGCCACT
1 GAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACT
1074589 GAGTCGTGGACTTT
1 GAGTCGTGGACTTT
1074603 TTTTTTTTTT
Statistics
Matches: 130, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
61 22 0.17
62 86 0.66
63 22 0.17
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (62 bp):
GAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
Found at i:1075570 original size:6 final size:6
Alignment explanation
Indices: 1075559--1075590 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1075549 TGAAAAGGGG
1075559 TTTTTC TTTTTC TTTTTC TTTTT- TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1075591 GTGAAGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (6 bp):
TTTTTC
Found at i:1075922 original size:1 final size:1
Alignment explanation
Indices: 1075916--1076013 Score: 61
Period size: 1 Copynumber: 98.0 Consensus size: 1
1075906 ACCTTTGCAC
* * * * * * * * * *
1075916 TTTTTTTGTGTTTTTTTTTCTTTTTCTTCTTTTTTTTGTTTTTTGTTTTTTGTGTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
1075981 TTTTGTGTGTTTTTTTTGTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1076014 CATCACTTCT
Statistics
Matches: 67, Mismatches: 30, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (1 bp):
T
Found at i:1075964 original size:16 final size:15
Alignment explanation
Indices: 1075916--1076013 Score: 99
Period size: 16 Copynumber: 6.3 Consensus size: 15
1075906 ACCTTTGCAC
1075916 TTTTTTTGTGTTTTTT
1 TTTTTTTGT-TTTTTT
* * *
1075932 TTTCTTT-TTCTTCT
1 TTTTTTTGTTTTTTT
1075946 TTTTTTTGTTTTTTGT
1 TTTTTTTGTTTTTT-T
*
1075962 TTTTTGTGTTTTTTGT
1 TTTTTTTGTTTTTT-T
1075978 TTTTTTTGTGTGTTTTT
1 TTTTTTTGT-T-TTTTT
*
1075995 TTTGTTTGTTTTTTT
1 TTTTTTTGTTTTTTT
1076010 TTTT
1 TTTT
1076014 CATCACTTCT
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
14 10 0.15
15 13 0.19
16 31 0.46
17 10 0.15
18 4 0.06
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (15 bp):
TTTTTTTGTTTTTTT
Found at i:1075967 original size:44 final size:46
Alignment explanation
Indices: 1075917--1076012 Score: 135
Period size: 44 Copynumber: 2.1 Consensus size: 46
1075907 CCTTTGCACT
1075917 TTTTTTGTGTTTTTT-TTTCTTTTTCT-TCTTTTTTTTGTTT-TTTG
1 TTTTTTGTGTTTTTTGTTT-TTTTTCTGTCTTTTTTTTGTTTGTTTG
* * *
1075961 TTTTTTGTGTTTTTTGTTTTTTTTGTGTGTTTTTTTTGTTTGTTTT
1 TTTTTTGTGTTTTTTGTTTTTTTTCTGTCTTTTTTTTGTTTGTTTG
1076007 TTTTTT
1 TTTTTT
1076013 TCATCACTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
44 21 0.46
45 16 0.35
46 9 0.20
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.84
Consensus pattern (46 bp):
TTTTTTGTGTTTTTTGTTTTTTTTCTGTCTTTTTTTTGTTTGTTTG
Found at i:1076000 original size:9 final size:9
Alignment explanation
Indices: 1075916--1076013 Score: 80
Period size: 9 Copynumber: 10.7 Consensus size: 9
1075906 ACCTTTGCAC
1075916 TTTTTTTGTG
1 TTTTTTT-TG
1075926 TTTTTTTT-
1 TTTTTTTTG
*
1075934 TCTTTTTCTTC
1 T-TTTTT-TTG
1075945 TTTTTTTTG
1 TTTTTTTTG
1075954 --TTTTTTG
1 TTTTTTTTG
*
1075961 TTTTTTGTG
1 TTTTTTTTG
1075970 TTTTTTGTT-
1 TTTTTT-TTG
1075979 TTTTTTGTGTG
1 TTTTTT-T-TG
1075990 TTTTTTTTG
1 TTTTTTTTG
1075999 TTTGTTTTT-
1 TTT-TTTTTG
1076008 TTTTTT
1 TTTTTT
1076014 CATCACTTCT
Statistics
Matches: 76, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
7 7 0.09
8 4 0.05
9 36 0.47
10 22 0.29
11 7 0.09
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1083046 original size:52 final size:52
Alignment explanation
Indices: 1082913--1083053 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
1082903 TGAAAAGTTA
1082913 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1082965 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
1083017 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
1083054 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1083060 original size:13 final size:13
Alignment explanation
Indices: 1083042--1083066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1083032 CAAAAATCAG
1083042 TGTATCGATACAA
1 TGTATCGATACAA
1083055 TGTATCGATACA
1 TGTATCGATACA
1083067 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1083149 original size:13 final size:13
Alignment explanation
Indices: 1083131--1083155 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1083121 CAAAAAAATA
1083131 TGTATCGATACAT
1 TGTATCGATACAT
1083144 TGTATCGATACA
1 TGTATCGATACA
1083156 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1083151 original size:33 final size:33
Alignment explanation
Indices: 1083109--1083175 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1083099 AGTAGCTTAA
1083109 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1083142 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1083175 A
1 A
1083176 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1083254 original size:21 final size:21
Alignment explanation
Indices: 1083213--1083254 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1083203 GTTGGGACCT
*
1083213 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1083234 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1083255 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1083389 original size:7 final size:7
Alignment explanation
Indices: 1083377--1083401 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1083367 GATGAAATCA
1083377 AGGGTTT
1 AGGGTTT
1083384 AGGGTTT
1 AGGGTTT
1083391 AGGGTTT
1 AGGGTTT
1083398 AGGG
1 AGGG
1083402 ACGATGGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (7 bp):
AGGGTTT
Found at i:1092409 original size:20 final size:20
Alignment explanation
Indices: 1092355--1092410 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
1092345 AAATTCCCAG
**
1092355 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
*
1092375 ATGTATCGATGCATTGAAT-A
1 ATGTATCGATACATTG-ATCA
1092395 ATGTATCGATACATTG
1 ATGTATCGATACATTG
1092411 CCTTGGCAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1093410 original size:49 final size:48
Alignment explanation
Indices: 1093244--1094141 Score: 736
Period size: 49 Copynumber: 18.8 Consensus size: 48
1093234 CGAAGAATGA
* * * * * *
1093244 CAATATGCTGATTCATGGCCAGCGACCTTAGACTTGAAGAAGAA-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGTGC
** * *
1093291 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATG-TTATAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGA-AG-TGC
* * * *
1093343 CAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG-TGC
* * * *
1093392 CAATGTGCTGATTTAAGGCCAACGAAATTGGTCTTAAAGATGACAGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AGTGC
* * * * * **
1093441 TAATATGTTGATTTAAGGCCAGCGATATCAGACTT--AGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG-TGC
*
1093488 CAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AA-GTGC
* * * * *
1093540 CAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATGAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AGTGC
* * * *
1093589 CAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GTGC
* * * * * *
1093637 CAATATGTTGATTCAAGGCCAACAATATTGGGC-T-----T--A-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGTGC
1093676 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAACGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GTGC
*
1093725 CAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGAACGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GTGC
* * * * *
1093774 CAAGGTACTAATTTAAGGCCAGCGACATTAGACTTAAAGATGAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GTGC
* *
1093823 CAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG-TGC
* * * * *
1093872 AAATGTGCTAATTCAAGGCCAGCAACATCGGTCTTAAAGATGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG-TGC
* * *
1093921 CAATATGCTGATTTAAGGCCAGCGATATTGGACTT-AA-A-G--GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGTGC
* * * * * *
1093964 CAATGTGTTGATTCAAGGCTAACGACATCGGTCTTAAAGATGAAGGAGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GTGC
* * * *
1094013 CAATATGTTGATTCAAGGCCAGCAATATTGGAC-T-----T---GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGTGC
* * *
1094052 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GTGC
* * * *
1094101 TAGTATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
1094142 AGACGCCACC
Statistics
Matches: 684, Mismatches: 121, Indels: 89
0.77 0.14 0.10
Matches are distributed among these distances:
39 60 0.09
40 2 0.00
41 1 0.00
43 31 0.05
44 3 0.00
45 3 0.00
46 4 0.01
47 67 0.10
48 36 0.05
49 389 0.57
50 13 0.02
51 1 0.00
52 73 0.11
53 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGTGC
Found at i:1093475 original size:98 final size:97
Alignment explanation
Indices: 1093244--1094149 Score: 812
Period size: 98 Copynumber: 9.5 Consensus size: 97
1093234 CGAAGAATGA
* ** * * **
1093244 CAATATGCTGATTCATGGCCAGCGACCTTAGACTT--GAAGAAGAATGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAG-ATGCCAATGTGCTGATTCAA
* * * *
1093307 GGCCAGCGACATTGGGCTTAGGAATG-TTATAGTTGC
65 GGCCAACGACATTGGTCTTA--AA-GATGA-AGGTGC
* * *
1093343 CAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTTAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGATGCCAATGTGCTGATTCAA
*
1093408 GGCCAACGAAATTGGTCTTAAAGATGACA-GTGC
65 GGCCAACGACATTGGTCTTAAAGATGA-AGGTGC
* * * **
1093441 TAATATGTTGATTTAAGGCCAGCGATATCAGACTT-AGATGAAGATGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGATGCCAATGTGCTGATTCAAG
** *
1093505 GCCAGTGACATTGGACTTAAAGATGGTTAAGGTGC
66 GCCAACGACATTGGTCTTAAAGAT-G--AAGGTGC
* * * * * * * * *
1093540 CAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATGAGGGTGCCAATGTGCTAATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGATGCCAATGTGCTGATTCAA
*
1093605 GGCCAACGACATTGGTCTTAAAGA-CAAGGTGC
65 GGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * *
1093637 CAATATGTTGATTCAAGGCCAACAATATTGGGC-T----T----ATGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGATGCCAATGTGCTGATTCAAG
* * *
1093693 GCCAGCGACATTGGACTTAAAGATGAACGTGC
66 GCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * * * *
1093725 CAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGAACG-TGCCAAGGTACTAATTTA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAA-GATGCCAATGTGCTGATTCA
* * * *
1093789 AGGCCAGCGACATTAGACTTAAAGATGAATGTGC
64 AGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * * *
1093823 CAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATGATGATGCAAATGTGCTAATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGATGCCAATGTGCTGATTCAA
* * * *
1093888 GGCCAGCAACATCGGTCTTAAAGATGAAGTTGC
65 GGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
1093921 CAATATGCTGATTTAAGGCCAGCGATATTGGACTTAA-A-G--G-TGCCAATGTGTTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGATGCCAATGTGCTGATTCAAG
* * *
1093981 GCTAACGACATCGGTCTTAAAGATGAAGGAGC
66 GCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
1094013 CAATATGTTGATTCAAGGCCAGCAATATTGGAC-T----T---G-TGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGATGCCAATGTGCTGATTCAAG
*
1094069 GCCAACGACATTGGTCTTAAAGATAAAGGTGC
66 GCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * *
1094101 TAGTATGCTGATTCAAGGCCAGCGATATTGGACTT-AGAAGAAGACGCCA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGATGCCA
1094150 CCAACTTGTG
Statistics
Matches: 670, Mismatches: 105, Indels: 67
0.80 0.12 0.08
Matches are distributed among these distances:
87 40 0.06
88 109 0.16
89 2 0.00
91 2 0.00
92 74 0.11
93 1 0.00
94 1 0.00
95 2 0.00
96 54 0.08
97 39 0.06
98 195 0.29
99 65 0.10
101 80 0.12
102 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (97 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGATGCCAATGTGCTGATTCAAG
GCCAACGACATTGGTCTTAAAGATGAAGGTGC
Found at i:1093706 original size:39 final size:39
Alignment explanation
Indices: 1093634--1093711 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
1093624 AAAGACAAGG
* * *
1093634 TGCCAATATGTTGATTCAAGGCCAACAATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTA
* * *
1093673 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
1 TGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTA
1093712 AAGATGAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAACAACATTGGACTTA
Found at i:1094090 original size:376 final size:379
Alignment explanation
Indices: 1093287--1094141 Score: 1017
Period size: 376 Copynumber: 2.2 Consensus size: 379
1093277 TTGAAGAAGA
** * * * * *
1093287 ATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTATA-GTTGCCAATATGT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATAAACG-TGCCAATATGC
* * * * *
1093351 TGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTTAAGGCCAACG
62 TAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAAGGTACTAATTTAAGGCCAACG
* * * * * *
1093416 AAATTGGTCTTAAAGATGACAGTGCTAATATGTTGATTTAAGGCCAGCGATATCAGACTTAGATG
127 AAATTAGACTTAAAGATGACAGTGCCAATATGCTGATTCAAGGCCAGCGACATCAGACTTAGATG
* * ** * *
1093481 AAGATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGGTTAAGGTGCCAATGT
192 AAGATGCAAATGTGCTAATTCAAGGCCAGCAACATCGGACTTAAAGATGG-TAAGGTGCCAATAT
*
1093546 GCTGATTCAAGGCCAACAACATCGGTCTTAAAGATGAGGGTGCCAATGTGCTAATTCAAGGCCAA
256 GCTGATTCAAGGCCAACAACATCGGACTT-AAGA-GAGGGTGCCAATGTGCTAATTCAAGGCCAA
* * *
1093611 CGACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTCAAGGCCAACAATATTGGGCTT
319 CGACATCGGTCTTAAAGACAAGGAGCCAATATGTTGATTCAAGGCCAACAATATTGGACTT
* * *
1093672 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAACGTGCCAATGTGCTAAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAACGTGCCAATATGCTAAT
* * *
1093737 TCAAGGCCAGCGACATTGGACTTAAAGATGAACG-TGCCAAGGTACTAATTTAAGGCCAGCGACA
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAA-GATGCCAAGGTACTAATTTAAGGCCAACGAAA
* ** *
1093801 TTAGACTTAAAGATGA-ATGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATG
130 TTAGACTTAAAGATGACA-GTGCCAATATGCTGATTCAAGGCCAGCGACATCAGACTT--AGATG
* * *
1093865 ATGATGCAAATGTGCTAATTCAAGGCCAGCAACATCGGTCTTAAAGAT-G-AAGTTGCCAATATG
192 AAGATGCAAATGTGCTAATTCAAGGCCAGCAACATCGGACTTAAAGATGGTAAGGTGCCAATATG
* * * * * * * *
1093928 CTGATTTAAGGCCAGCGATATTGGACTT-A-A-A-GGTGCCAATGTGTTGATTCAAGGCTAACGA
257 CTGATTCAAGGCCAACAACATCGGACTTAAGAGAGGGTGCCAATGTGCTAATTCAAGGCCAACGA
* *
1093989 CATCGGTCTTAAAGATGAAGGAGCCAATATGTTGATTCAAGGCCAGCAATATTGGACTT
322 CATCGGTCTTAAAGA-CAAGGAGCCAATATGTTGATTCAAGGCCAACAATATTGGACTT
* * * * * *
1094048 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCTAGTATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAACGTGCCAATATGCTAAT
1094113 TCAAGGCCAGCGATATTGGACTTAGAAGA
66 TCAAGGCCAGCGATATTGGACTTA-AAGA
1094142 AGACGCCACC
Statistics
Matches: 404, Mismatches: 59, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
375 41 0.10
376 119 0.29
377 4 0.01
378 1 0.00
379 1 0.00
381 35 0.09
382 115 0.28
383 5 0.01
384 46 0.11
385 37 0.09
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (379 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAACGTGCCAATATGCTAAT
TCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAAGGTACTAATTTAAGGCCAACGAAAT
TAGACTTAAAGATGACAGTGCCAATATGCTGATTCAAGGCCAGCGACATCAGACTTAGATGAAGA
TGCAAATGTGCTAATTCAAGGCCAGCAACATCGGACTTAAAGATGGTAAGGTGCCAATATGCTGA
TTCAAGGCCAACAACATCGGACTTAAGAGAGGGTGCCAATGTGCTAATTCAAGGCCAACGACATC
GGTCTTAAAGACAAGGAGCCAATATGTTGATTCAAGGCCAACAATATTGGACTT
Found at i:1094113 original size:88 final size:89
Alignment explanation
Indices: 1093873--1094137 Score: 370
Period size: 88 Copynumber: 3.0 Consensus size: 89
1093863 TGATGATGCA
* * * * *
1093873 AATGTGCTAATTCAAGGCCAGCAACATCGGTCTTAAAGATGAAGTTGCCAATATGCTGATTTAAG
1 AATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
1093938 GCCAGCGATATTGGACTTAAAGGTGCC
66 GCCAGCGATATTGGACTT--A-GTGCC
* * * *
1093965 AATGTGTTGATTCAAGGCTAACGACATCGGTCTTAAAGATGAAGGAGCCAATATGTTGATTCAAG
1 AATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
*
1094030 GCCAGCAATATTGGACTT-GTGCC
66 GCCAGCGATATTGGACTTAGTGCC
* * * *
1094053 AATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCTAGTATGCTGATTCAAG
1 AATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
1094118 GCCAGCGATATTGGACTTAG
66 GCCAGCGATATTGGACTTAG
1094138 AAGAAGACGC
Statistics
Matches: 153, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
88 79 0.52
89 1 0.01
92 73 0.48
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (89 bp):
AATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGACTTAGTGCC
Found at i:1094245 original size:57 final size:57
Alignment explanation
Indices: 1094158--1094280 Score: 160
Period size: 57 Copynumber: 2.1 Consensus size: 57
1094148 CACCAACTTG
* *
1094158 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTT-AAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAGGGATGCACCAACTTGTGGGCTTTTAAAAGG-TGCCACTAACT
* *
1094215 TGTGGGC-TTTGAAAGGGATGCCACCGACTTGTGGGCTTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGATG-CACCAACTTGTGGGCTTTT--AAAAGGTGCCACTAACT
1094274 TGTGGGC
1 TGTGGGC
1094281 CTAAAAGAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
56 12 0.21
57 24 0.41
59 17 0.29
60 5 0.09
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAGGGATGCACCAACTTGTGGGCTTTTAAAAGGTGCCACTAACT
Found at i:1094246 original size:29 final size:30
Alignment explanation
Indices: 1094146--1094280 Score: 145
Period size: 29 Copynumber: 4.6 Consensus size: 30
1094136 AGAAGAAGAC
1094146 GCCACCAACTTGTGTGGGCTTTTGAAAGGGTT
1 GCCACCAAC-T-TGTGGGCTTTTGAAAGGGTT
*
1094178 G-CACCAACTTGTGTGCTTTT-AAA-GGTT
1 GCCACCAACTTGTGGGCTTTTGAAAGGGTT
* *
1094205 GCCACTAACTTGTGGGC-TTTGAAAGGGAT
1 GCCACCAACTTGTGGGCTTTTGAAAGGGTT
* *
1094234 GCCACCGACTTGTGGGCTTTTGAAAAAGG-T
1 GCCACCAACTTGTGGGCTTTTG-AAAGGGTT
**
1094264 GCCACTGACTTGTGGGC
1 GCCACCAACTTGTGGGC
1094281 CTAAAAGAAG
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.09
28 19 0.21
29 28 0.31
30 22 0.24
31 12 0.13
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (30 bp):
GCCACCAACTTGTGGGCTTTTGAAAGGGTT
Found at i:1094346 original size:60 final size:54
Alignment explanation
Indices: 1094298--1094679 Score: 305
Period size: 60 Copynumber: 6.3 Consensus size: 54
1094288 AAGAAAGATA
*
1094298 CCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
*
1094352 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCACGGAGTTGTGGACTTAAAA-G-----G-
1094417 GTG
52 GTG
1094420 CCACGGAGTTGTGGACTTAAAAAGAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTT-AAAAG----G-GTGCCACGGAGTTGTGGACTTAAAAGGGTG
* *
1094480 CCACGGAGTTGTGGACTTAAAAGGAACAAGGGGCCACAGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----GGTGCCACGGAGTTGTGGACTTAAAAGGGTG
* *
1094540 CCACAGAATTGTGGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTGAAAAGAAAAGAG
1 CCACGGAGTTGTGGACTTAAAAGG-------GTGCCACGGAGTTGTGGACTT-AAAAG----G-G
1094605 TG
53 TG
* * *
1094607 CCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGCTATGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
* *
1094662 CCACAGAGTCGTGGACTT
1 CCACGGAGTTGTGGACTT
1094680 TGAAGAAAAG
Statistics
Matches: 279, Mismatches: 18, Indels: 62
0.78 0.05 0.17
Matches are distributed among these distances:
54 25 0.09
55 17 0.06
56 1 0.00
59 5 0.02
60 76 0.27
61 66 0.24
62 6 0.02
66 2 0.01
67 47 0.17
68 30 0.11
69 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (54 bp):
CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
Found at i:1094387 original size:34 final size:33
Alignment explanation
Indices: 1094257--1094773 Score: 361
Period size: 27 Copynumber: 16.8 Consensus size: 33
1094247 GGGCTTTTGA
* * * * *
1094257 AAAAG-GTGCCACTGACTTGTGGGCCTAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
*
1094289 AGAAAGA-TACCACGGAGTTGTGGACTTAAAA-G
1 A-AAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
*
1094321 ----G-GTGCCATGGAGTTGTGGACTTAAAA-G
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
1094348 ----G-GTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
*
1094376 AAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGG
1 -AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
*
1094410 AAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAG
1 -AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
1094444 AAAAGAGTGCCACGGAGTTGTGGACTTAAAA-G
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
1094476 ----G-GTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
* *
1094504 AACAAG-GGGCCACAGAGTTGTGGACTTAAAA-G
1 AA-AAGAGTGCCACGGAGTTGTGGACTTAAAAGG
* *
1094536 ----G-GTGCCACAGAATTGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
*
1094564 AAAAAAAGTGCCACGGAGTTGTGGACTTGAAAA-G
1 -AAAAGAGTGCCACGGAGTTGTGGACTT-AAAAGG
*
1094598 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-G
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGG
* *
1094631 ----G-GTGCCACGGAGCTATGGACTTAAAA-G
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
* * **
1094658 ----G-GTGCCACAGAGTCGTGGACTTTGAA-G
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
* ** **
1094685 AAAAGA-TGCCACTGAGTCATGGACTTGGAA-G
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1094716 AAAAG-GATGCCACTGAGTCGTGGACTTAGAA-G
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAGG
* *
1094748 AAAAGA-TGCCACTGAGTCGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
1094774 TGGAAAGAGA
Statistics
Matches: 417, Mismatches: 35, Indels: 67
0.80 0.07 0.13
Matches are distributed among these distances:
27 126 0.30
28 20 0.05
29 1 0.00
31 48 0.12
32 31 0.07
33 107 0.26
34 80 0.19
35 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.20
Consensus pattern (33 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:1094441 original size:155 final size:152
Alignment explanation
Indices: 1094255--1094773 Score: 601
Period size: 155 Copynumber: 3.4 Consensus size: 152
1094245 GTGGGCTTTT
* * * * *
1094255 GAAAAAG-GTGCCACTGACTTGTGGGCCTAAAAGAAGAA-AGATACCACGGAGTTGTGGACTTAA
1 GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA-AAGAG-TGCCACGGAGTTGTGGACTTAA
* *
1094318 AAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
64 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA-G-AAAAGA
1094383 GTGCCACAGAGTTGTGGACTTAAAAG
127 GTGCCACAGAGTTGTGGACTTAAAAG
1094409 GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGAGTGCCACGGAGTTGTGGACTTAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGACTT-AAAAGAAAAGAGTGCCACGGAGTTGTGGACTTAAA
*
1094474 AGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGGGCCACAGAGTTGTGGACTTAAAAG---
65 AGGGTGCCACGGAGTTGTGGACTTAAAA-G-----GGTGCCACAGAGTTGTGGACTTAAAAGAAA
*
1094536 -G-GTGCCACAGAATTGTGGACTTAAAAG
124 AGAGTGCCACAGAGTTGTGGACTTAAAAG
* *
1094563 GAAAAAAAGTGCCACGGAGTTGTGGACTTGAAAAGAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 GAAAAAGAGTGCCACGGAGTTGTGGACTT-AAAAGAAAAGAGTGCCACGGAGTTGTGGAC-TTAA
* * * **
1094628 AAGGGTGCCACGGAGCTATGGACTTAAAAGGGTGCCACAGAGTCGTGGACTTTGAAGAAAAGA-T
64 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAGAGT
* ** **
1094692 GCCACTGAGTCATGGACTTGGAA-
129 GCCACAGAGTTGTGGACTTAAAAG
* * * * * *
1094715 GAAAAGGA-TGCCACTGAGTCGTGGACTTAGAAGAAAAGA-TGCCACTGAGTCGTGGACTT
1 GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAGAGTGCCACGGAGTTGTGGACTT
1094774 TGGAAAGAGA
Statistics
Matches: 318, Mismatches: 32, Indels: 36
0.82 0.08 0.09
Matches are distributed among these distances:
148 2 0.01
149 38 0.12
150 10 0.03
151 18 0.06
152 6 0.02
153 19 0.06
154 90 0.28
155 100 0.31
156 10 0.03
160 1 0.00
161 24 0.08
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (152 bp):
GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAGAGTGC
CACAGAGTTGTGGACTTAAAAG
Found at i:1094588 original size:154 final size:152
Alignment explanation
Indices: 1094298--1094679 Score: 540
Period size: 154 Copynumber: 2.5 Consensus size: 152
1094288 AAGAAAGATA
* * *
1094298 CCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAA-GGGTGCCACGGAGTT
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGGGGCCACAGAGTT
* *
1094362 GTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGA
66 GTGGACTTAAAAGG----AGAGTGCCACAGAATTGTGGACTTAAAAGGAAAAAAAGTGCCACGGA
1094427 GTTGTGGACTTAAAAAGAAAAGAGTG
127 GTTGTGGACTTAAAAAGAAAAGAGTG
1094453 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGGGCCACA
1 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-----GGGGCCACA
1094518 GAGTTGTGGACTTAAAA-G-G-GTGCCACAGAATTGTGGACTTAAAAGGAAAAAAAGTGCCACGG
61 GAGTTGTGGACTTAAAAGGAGAGTGCCACAGAATTGTGGACTTAAAAGGAAAAAAAGTGCCACGG
*
1094580 AGTTGTGGACTTGAAAAGAAAAGAGTG
126 AGTTGTGGACTTAAAAAGAAAAGAGTG
* * * *
1094607 CCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGCTATGGACTTAAAA-GGGTGCCACAGAGT
1 CCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGGGGCCACAGAGT
*
1094671 CGTGGACTT
65 TGTGGACTT
1094680 TGAAGAAAAG
Statistics
Matches: 209, Mismatches: 11, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
149 20 0.10
154 83 0.40
155 80 0.38
156 1 0.00
160 1 0.00
161 24 0.11
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (152 bp):
CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGGGGCCACAGAGTT
GTGGACTTAAAAGGAGAGTGCCACAGAATTGTGGACTTAAAAGGAAAAAAAGTGCCACGGAGTTG
TGGACTTAAAAAGAAAAGAGTG
Found at i:1094630 original size:28 final size:28
Alignment explanation
Indices: 1094571--1094680 Score: 114
Period size: 33 Copynumber: 3.8 Consensus size: 28
1094561 AGGAAAAAAA
*
1094571 GTGCCACGGAGTTGTGGACTTGAAAAGAAAAG
1 GTGCCACGGAGTTGTGGACTTTAAAAG----G
*
1094603 AGTGCCACGGAGTTGTGGGCTTTAAAAGG
1 -GTGCCACGGAGTTGTGGACTTTAAAAGG
* *
1094632 GTGCCACGGAGCTATGGAC-TTAAAAGG
1 GTGCCACGGAGTTGTGGACTTTAAAAGG
* *
1094659 GTGCCACAGAGTCGTGGACTTT
1 GTGCCACGGAGTTGTGGACTTT
1094681 GAAGAAAAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.34
28 18 0.27
29 1 0.01
33 25 0.37
ACGTcount: A:0.27, C:0.16, G:0.35, T:0.22
Consensus pattern (28 bp):
GTGCCACGGAGTTGTGGACTTTAAAAGG
Found at i:1094734 original size:63 final size:62
Alignment explanation
Indices: 1094654--1094867 Score: 292
Period size: 63 Copynumber: 3.5 Consensus size: 62
1094644 TATGGACTTA
* *
1094654 AAAGGGTGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTGGAAG
1 AAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTGGAAG
* * *
1094716 AAAAGGATGCCACTGAGTCGTGGACTTAGAAGAAAAGATGCCACTGAGTCGTGGACTTTG--G
1 -AAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTGGAAG
* * *
1094777 AAAGAGATGCCATTGAGTCGTGGACTTTGAAGAAAAAAAATGTCACTGAGTCATGGACTTGGAAG
1 AAAG-GATGCCACTGAGTCGTGGACTTTGAAG--AAAAGATGCCACTGAGTCATGGACTTGGAAG
1094842 -AA-GATGCCACTGAGTCGTGGACTTTG
1 AAAGGATGCCACTGAGTCGTGGACTTTG
1094868 GGAAGAGAGA
Statistics
Matches: 134, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
60 4 0.03
61 26 0.19
62 23 0.17
63 78 0.58
64 2 0.01
65 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.22
Consensus pattern (62 bp):
AAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTGGAAG
Found at i:1094774 original size:94 final size:92
Alignment explanation
Indices: 1094660--1094875 Score: 292
Period size: 94 Copynumber: 2.3 Consensus size: 92
1094650 CTTAAAAGGG
* **
1094660 TGCCACAGAGTCGTGGACTTTGAAGAAA-AGATGCCACTGAGTCATGGACTTGGAAG-AAAAGGA
1 TGCCACTGAGTCGTGGACTTTG--GAAAGAGATGCCACTGAGTCATGGACTTGGAAGAAAAAAAA
*
1094723 TGCCACTGAGTCGTGGACTTAGAAGAAAAGA
64 TGCCACTGAGTCATGGACTTAGAAG--AAGA
* * *
1094754 TGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCATTGAGTCGTGGACTTTGAAGAAAAAAAATG
1 TGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCATGGACTTGGAAGAAAAAAAATG
* *
1094819 TCACTGAGTCATGGACTTGGAAGAAGA
66 CCACTGAGTCATGGACTTAGAAGAAGA
*
1094846 TGCCACTGAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGAAAGAGA
1094876 GATTTGAAGA
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
92 37 0.34
93 25 0.23
94 48 0.44
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (92 bp):
TGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCATGGACTTGGAAGAAAAAAAATG
CCACTGAGTCATGGACTTAGAAGAAGA
Found at i:1099533 original size:34 final size:35
Alignment explanation
Indices: 1099495--1099561 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1099485 CCTTACAACA
1099495 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1099529 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1099562 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1100178 original size:53 final size:53
Alignment explanation
Indices: 1100120--1100250 Score: 217
Period size: 53 Copynumber: 2.5 Consensus size: 53
1100110 GATGAATAGT
1100120 GATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACCTGTATC
1 GATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACCTGTATC
* * *
1100173 GATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCCTGTATC
1 GATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACCTGTATC
*
1100226 GATACCTATTTGTGTGTATCGATAC
1 GATACATATTT-TGTGTATCGATAC
1100251 TATGCAATTT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
53 59 0.82
54 13 0.18
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
GATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACCTGTATC
Found at i:1100283 original size:20 final size:20
Alignment explanation
Indices: 1100238--1100291 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1100228 TACCTATTTG
*
1100238 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATGAAA
* *
1100258 TTTGTATCGATAC-ATTTAAA
1 TGTGTATCGATACTA-TGAAA
1100278 TGTGTATCGATACT
1 TGTGTATCGATACT
1100292 TTTCAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTGTATCGATACTATGAAA
Found at i:1100352 original size:21 final size:21
Alignment explanation
Indices: 1100328--1100370 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1100318 AAGTCAACCT
1100328 TATGTATTAATACCAATA-GTA
1 TATGTATTAATA-CAATACGTA
*
1100349 TATGTATTGATACAATACGTA
1 TATGTATTAATACAATACGTA
1100370 T
1 T
1100371 TTTTACTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (21 bp):
TATGTATTAATACAATACGTA
Found at i:1102725 original size:35 final size:35
Alignment explanation
Indices: 1102686--1102755 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
1102676 TTGGCAGAGC
1102686 ACATGTAAAAAAAGGTGTGTCAAATTTTGAAAAAT
1 ACATGTAAAAAAAGGTGTGTCAAATTTTGAAAAAT
1102721 ACATGTAAAAAAAGGTGTGTCAAATTTTGAAAAAT
1 ACATGTAAAAAAAGGTGTGTCAAATTTTGAAAAAT
1102756 CACCCCGGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.29
Consensus pattern (35 bp):
ACATGTAAAAAAAGGTGTGTCAAATTTTGAAAAAT
Found at i:1104930 original size:20 final size:20
Alignment explanation
Indices: 1104905--1104958 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
1104895 GCTAGAAGCA
1104905 ATGTATCGATACAAT-T-CAT
1 ATGTATCGATACAATGTGC-T
1104924 CATGTATCGATACAATGTGCT
1 -ATGTATCGATACAATGTGCT
1104945 ATGTATCGATACAA
1 ATGTATCGATACAA
1104959 ACAATGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.91
21 2 0.06
22 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCT
Found at i:1105026 original size:13 final size:13
Alignment explanation
Indices: 1105008--1105034 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1104998 ACAATTGTGC
1105008 ATGTATCGATACA
1 ATGTATCGATACA
1105021 ATGTATCGATACA
1 ATGTATCGATACA
1105034 A
1 A
1105035 AACATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1106706 original size:9 final size:9
Alignment explanation
Indices: 1106692--1106719 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1106682 TTTTTCTCGA
1106692 TTTAAAATT
1 TTTAAAATT
1106701 TTTAAAATT
1 TTTAAAATT
1106710 TTTAAAATT
1 TTTAAAATT
1106719 T
1 T
1106720 ATCTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTAAAATT
Found at i:1111599 original size:20 final size:20
Alignment explanation
Indices: 1111574--1111625 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1111564 ATCAATACAT
**
1111574 TGTATCGATACATGACTAAA
1 TGTATCGATACATGAAAAAA
*
1111594 TGTATCGATACTTGAAAAAA
1 TGTATCGATACATGAAAAAA
*
1111614 TGTATCCATACA
1 TGTATCGATACA
1111626 GGTCATTAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:1111695 original size:13 final size:13
Alignment explanation
Indices: 1111677--1111768 Score: 64
Period size: 13 Copynumber: 8.0 Consensus size: 13
1111667 ACACACAATA
1111677 TGTATCGATACAT
1 TGTATCGATACAT
1111690 TGTATCGATACA-
1 TGTATCGATACAT
* *
1111702 T-CA-C-A-A-AA
1 TGTATCGATACAT
1111710 TGTATCGATACAT
1 TGTATCGATACAT
1111723 TGTATCGATACA-
1 TGTATCGATACAT
* *
1111735 T-CA-C-A-A-AA
1 TGTATCGATACAT
1111743 TGTATCGATACAT
1 TGTATCGATACAT
1111756 TGTATCGATACAT
1 TGTATCGATACAT
1111769 CACAAAATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
7 2 0.03
8 4 0.07
9 4 0.07
10 4 0.07
11 4 0.07
12 4 0.07
13 39 0.64
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1111713 original size:33 final size:33
Alignment explanation
Indices: 1111657--1111790 Score: 252
Period size: 33 Copynumber: 4.1 Consensus size: 33
1111647 GTAGCTAAAT
*
1111657 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
1111689 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
1111722 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
1111755 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
1111788 TTG
1 TTG
1111791 GCTTGTAACG
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 13 0.13
33 87 0.87
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:1111715 original size:20 final size:20
Alignment explanation
Indices: 1111690--1111788 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 20
1111680 ATCGATACAT
1111690 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
1111710 TGTATCGATACAT-------
1 TGTATCGATACATCACAAAA
1111723 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
1111743 TGTATCGATACAT-------
1 TGTATCGATACATCACAAAA
1111756 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
1111776 TGTATCGATACAT
1 TGTATCGATACAT
1111789 TGGCTTGTAA
Statistics
Matches: 65, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 26 0.40
20 39 0.60
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:1117882 original size:13 final size:13
Alignment explanation
Indices: 1117864--1117899 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1117854 GCATTCTCTG
*
1117864 TATCGATACATTA
1 TATCGATACAGTA
*
1117877 TATCGATACAGTG
1 TATCGATACAGTA
1117890 TATCGATACA
1 TATCGATACA
1117900 AGGGGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTA
Found at i:1118052 original size:20 final size:20
Alignment explanation
Indices: 1118017--1118057 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1118007 CAAATTTCTT
1118017 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
1118039 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
1118058 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:1118351 original size:20 final size:21
Alignment explanation
Indices: 1118321--1118360 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1118311 CCTAGGCAGC
*
1118321 ACCCACCAGGTCGCGACCGGT
1 ACCCACCAGGTCGCAACCGGT
1118342 ACCC-CCAGGTCGCAACCGG
1 ACCCACCAGGTCGCAACCGG
1118361 GCAGCCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.20, C:0.45, G:0.28, T:0.07
Consensus pattern (21 bp):
ACCCACCAGGTCGCAACCGGT
Found at i:1120356 original size:13 final size:13
Alignment explanation
Indices: 1120338--1120362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1120328 AGATTGCACA
1120338 GTATCGATACATT
1 GTATCGATACATT
1120351 GTATCGATACAT
1 GTATCGATACAT
1120363 GACTAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1120375 original size:20 final size:20
Alignment explanation
Indices: 1120350--1120401 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1120340 ATCGATACAT
**
1120350 TGTATCGATACATGACTAAA
1 TGTATCGATACATGAAAAAA
*
1120370 TGTATCGATACTTGAAAAAA
1 TGTATCGATACATGAAAAAA
*
1120390 TGTGTCGATACA
1 TGTATCGATACA
1120402 GGTCATTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:1120458 original size:19 final size:18
Alignment explanation
Indices: 1120434--1120497 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
1120424 TAGCTAAATT
1120434 TGTATCGATACACACAATA
1 TGTATCGATACACACAA-A
1120453 TGTATCGAT--ACAC---
1 TGTATCGATACACACAAA
1120466 TGTATCGATACATCACAAAA
1 TGTATCGATACA-CAC-AAA
1120486 TGTATCGATACA
1 TGTATCGATACA
1120498 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 9 0.24
15 1 0.03
16 3 0.08
17 4 0.11
19 9 0.24
20 12 0.32
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACACAAA
Found at i:1120471 original size:13 final size:13
Alignment explanation
Indices: 1120453--1120477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1120443 ACACACAATA
1120453 TGTATCGATACAC
1 TGTATCGATACAC
1120466 TGTATCGATACA
1 TGTATCGATACA
1120478 TCACAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1120489 original size:33 final size:32
Alignment explanation
Indices: 1120434--1120497 Score: 110
Period size: 33 Copynumber: 2.0 Consensus size: 32
1120424 TAGCTAAATT
*
1120434 TGTATCGATACACACAATATGTATCGATACAC
1 TGTATCGATACACACAAAATGTATCGATACAC
1120466 TGTATCGATACATCACAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
1120498 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAC
Found at i:1124422 original size:81 final size:81
Alignment explanation
Indices: 1124255--1124491 Score: 270
Period size: 81 Copynumber: 3.0 Consensus size: 81
1124245 TAGCCCCTTG
* * ** * * * *
1124255 AAAATGATAGAGTTTGAA-TATCCCCGATGGTGAAAATTCAAT-ATTTTGGAAATTAAAACGAGG
1 AAAATGATAGAGGTTGAAGTATCCCTGATGGTGAAAATTTGATGATTTTGGAAGTAAAAATGGGG
*
1124318 TTGGAGTATCCCCTCG
66 TTGGAGTATCCCCTCA
*
1124334 AAAATGATAG-GGTTGAAGTATCCCTGATGGTGAAAATTTTGATGCTTTTGGAAGTAAAAATGGG
1 AAAATGATAGAGGTTGAAGTATCCCTGATGGTGAAAA-TTTGATGATTTTGGAAGTAAAAATGGG
*
1124398 GTTAGAGTATCCCCTCA
65 GTTGGAGTATCCCCTCA
* * *
1124415 AAAATGAT-GAGGTTGAAGTAT-CCTCGATGGTGAAAAATTTGATGTTTTTGCAAG-ACAAATGG
1 AAAATGATAGAGGTTGAAGTATCCCT-GATGGTG-AAAATTTGATGATTTTGGAAGTAAAAATGG
*
1124477 AGTTGGAGTATCCCC
64 GGTTGGAGTATCCCC
1124492 GAGATGAAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
78 6 0.04
79 27 0.20
80 28 0.21
81 71 0.52
82 4 0.03
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (81 bp):
AAAATGATAGAGGTTGAAGTATCCCTGATGGTGAAAATTTGATGATTTTGGAAGTAAAAATGGGG
TTGGAGTATCCCCTCA
Found at i:1127090 original size:91 final size:93
Alignment explanation
Indices: 1126899--1127091 Score: 250
Period size: 91 Copynumber: 2.1 Consensus size: 93
1126889 AAAATAACCT
* * *
1126899 GCATGTATCGATATATTGAAGAATGTATCGATACATTTAGGTCAAAAACCCAAAGTGTATCGATT
1 GCATGTATCGATATATTGAAGAATGTATCGATACATTTAGATCAAAAACCCAAAGTGTATCAATA
* *
1126964 CAATGAGAAATGTATCAATATACTGCCA
66 CAATGAGAAATGTATCAATACACTGCAA
* **
1126992 GCATGTATCGATACT-TTGAAGAATGTATCGATACATTT-GAT-TAAAACTTAGAA-TGTATCAA
1 GCATGTATCGATA-TATTGAAGAATGTATCGATACATTTAGATCAAAAACCCA-AAGTGTATCAA
* *
1127053 TACAATGAGAAATGTATCGATACATTGCAA
64 TACAATGAGAAATGTATCAATACACTGCAA
1127083 GCATGTATC
1 GCATGTATC
1127092 AATAGATTCA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
91 47 0.53
92 4 0.05
93 36 0.41
94 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (93 bp):
GCATGTATCGATATATTGAAGAATGTATCGATACATTTAGATCAAAAACCCAAAGTGTATCAATA
CAATGAGAAATGTATCAATACACTGCAA
Found at i:1131809 original size:22 final size:22
Alignment explanation
Indices: 1131744--1131809 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 22
1131734 TTTAATATGA
* *
1131744 TAAAAT-TAAAATAATATAAAT
1 TAAAATATAAAATAAAATATAT
* * *
1131765 TTAATTAAAAAATTATAAA-ATAT
1 TAAAATATAAAA-TA-AAATATAT
1131788 TAAAATATAAAATAAAATATAT
1 TAAAATATAAAATAAAATATAT
1131810 ATATTTTGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
21 7 0.21
22 10 0.30
23 14 0.42
24 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATATAAAATAAAATATAT
Found at i:1131887 original size:20 final size:20
Alignment explanation
Indices: 1131862--1131933 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
1131852 TTAAAAATCA
1131862 ATATTTTAAAAAAATTATCC
1 ATATTTTAAAAAAATTATCC
* *
1131882 ATATTTTTCTTAATTAAAA--ATCA
1 ATA---TT-TTAA-AAAAATTATCC
*
1131905 ATATTTTTAAAAAATTATCC
1 ATATTTTAAAAAAATTATCC
1131925 ATATTTTAA
1 ATATTTTAA
1131934 TCAATAACCA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
18 4 0.10
19 3 0.08
20 16 0.41
23 8 0.21
24 4 0.10
25 4 0.10
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTTAAAAAAATTATCC
Found at i:1131904 original size:43 final size:43
Alignment explanation
Indices: 1131843--1131931 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
1131833 CTTTTATTAC
1131843 TTTTCTTAATTAAAAATCAATATTTTAAAAAAATTATCCATAT
1 TTTTCTTAATTAAAAATCAATATTTTAAAAAAATTATCCATAT
*
1131886 TTTTCTTAATTAAAAATCAATATTTTTAAAAAATTATCCATAT
1 TTTTCTTAATTAAAAATCAATATTTTAAAAAAATTATCCATAT
1131929 TTT
1 TTT
1131932 AATCAATAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (43 bp):
TTTTCTTAATTAAAAATCAATATTTTAAAAAAATTATCCATAT
Found at i:1131910 original size:23 final size:23
Alignment explanation
Indices: 1131843--1131912 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
1131833 CTTTTATTAC
1131843 TTTTCTTAATTAAAAATCAATA-
1 TTTTCTTAATTAAAAATCAATAT
* *
1131865 --TT-TTAA-AAAAATTATCCATAT
1 TTTTCTTAATTAAAA--ATCAATAT
1131886 TTTTCTTAATTAAAAATCAATAT
1 TTTTCTTAATTAAAAATCAATAT
1131909 TTTT
1 TTTT
1131913 AAAAAATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 8 0.22
23 13 0.35
24 4 0.11
25 4 0.11
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTCTTAATTAAAAATCAATAT
Found at i:1133519 original size:39 final size:39
Alignment explanation
Indices: 1133420--1133554 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
1133410 AAAAGATGTA
* * * * *
1133420 ACTAATGCATTGATTTTTTTATTAGAATCTTAAAGACATT
1 ACTAATACATAGA-TTTTTTATTAGAATCTGAAAGATACT
* * *
1133460 ACTAATGCATAGATTATTTATTAGAATCTGAAAGATGCT
1 ACTAATACATAGATTTTTTATTAGAATCTGAAAGATACT
* * **
1133499 ATTAATACATTAG-TTTTTTATTAAAAT-TCGAAAGATAAG
1 ACTAATACA-TAGATTTTTTATTAGAATCT-GAAAGATACT
*
1133538 ACTAATGCATAGATTTT
1 ACTAATACATAGATTTT
1133555 ATTTTGGAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
38 4 0.05
39 58 0.75
40 15 0.19
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.41
Consensus pattern (39 bp):
ACTAATACATAGATTTTTTATTAGAATCTGAAAGATACT
Found at i:1134745 original size:33 final size:33
Alignment explanation
Indices: 1134708--1134770 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1134698 AGGTTTGACC
*
1134708 TTTCAAAGTGACTGTCCTAAAAGTATTAATATT
1 TTTCAAAGTGACTGTCCTAAAAATATTAATATT
*
1134741 TTTCAAAGTGATTGTCCTAAAAATATTAAT
1 TTTCAAAGTGACTGTCCTAAAAATATTAAT
1134771 GTTGATGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (33 bp):
TTTCAAAGTGACTGTCCTAAAAATATTAATATT
Found at i:1134854 original size:14 final size:14
Alignment explanation
Indices: 1134835--1134862 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1134825 AAGCTAGAAA
1134835 TAGAAATCAAGTAT
1 TAGAAATCAAGTAT
1134849 TAGAAATCAAGTAT
1 TAGAAATCAAGTAT
1134863 AGACTTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
TAGAAATCAAGTAT
Found at i:1136098 original size:32 final size:33
Alignment explanation
Indices: 1136037--1136100 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1136027 TACAAGCCAA
* *
1136037 TGTATCGATATATTTTGAGATGTATCGATACAT
1 TGTATCGATAAATCTTGAGATGTATCGATACAT
*
1136070 TGTATCGATAAATCTTGTG-TGTATCGATACA
1 TGTATCGATAAATCTTGAGATGTATCGATACA
1136101 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (33 bp):
TGTATCGATAAATCTTGAGATGTATCGATACAT
Found at i:1139267 original size:52 final size:52
Alignment explanation
Indices: 1139189--1139389 Score: 314
Period size: 52 Copynumber: 3.9 Consensus size: 52
1139179 CGAAATATGA
* *
1139189 AAATTTTCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
* *
1139241 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
* *
1139293 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
1139345 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
1139390 ATGTATCGAT
Statistics
Matches: 138, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
51 2 0.01
52 136 0.99
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:1139396 original size:13 final size:13
Alignment explanation
Indices: 1139378--1139402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1139368 CAAAGATCAG
1139378 TGTATCGATACAA
1 TGTATCGATACAA
1139391 TGTATCGATACA
1 TGTATCGATACA
1139403 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1139480 original size:33 final size:33
Alignment explanation
Indices: 1139443--1139509 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1139433 AGTAGCTTAA
1139443 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1139476 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1139509 A
1 A
1139510 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1139483 original size:13 final size:13
Alignment explanation
Indices: 1139465--1139489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1139455 CAAAAAAATA
1139465 TGTATCGATACAT
1 TGTATCGATACAT
1139478 TGTATCGATACA
1 TGTATCGATACA
1139490 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1140159 original size:30 final size:29
Alignment explanation
Indices: 1140104--1140563 Score: 286
Period size: 30 Copynumber: 15.9 Consensus size: 29
1140094 TCACCCTTCA
* * *
1140104 AAAGTCCACAAGTCAGTAGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
1140133 AAAGCCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
1140162 GAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
1140190 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* *
1140220 GAAGCCCACAAGTCGGTGGCATC-TTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * * *
1140248 CAAGTCC-CAACTCCGTGGCACCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * * *
1140276 TTTTGTAAGCTCACAACTCTA-TAGCA-CTCTTTC
1 -----AAAGCCCACAAGTC-AGTGGCATCTTTTTC
* * *
1140309 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
1140336 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
1140366 AAAAGCCCACAAGTCAGTGGCAAC--TTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
1140394 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
1140423 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* ** *
1140453 AAAAGCCCACAAGTCAGGGGCA-CCCTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
1140482 AAAGCCCACAAGTCAAGTGGCAAC----CC
1 AAAGCCCACAAGTC-AGTGGCATCTTTTTC
* * *
1140508 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
1140538 GAAGCCCACAA-TCGGTGGCACCTTTT
1 AAAGCCCACAAGTCAGTGGCATCTTTT
1140564 CCATCTAAGT
Statistics
Matches: 345, Mismatches: 59, Indels: 55
0.75 0.13 0.12
Matches are distributed among these distances:
25 8 0.02
26 27 0.08
27 58 0.17
28 41 0.12
29 47 0.14
30 144 0.42
33 10 0.03
34 10 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:1140199 original size:57 final size:58
Alignment explanation
Indices: 1140100--1140503 Score: 304
Period size: 57 Copynumber: 6.9 Consensus size: 58
1140090 TTCATCACCC
* * *** *
1140100 TTCAAAAGTCCACAAGTCAGTAGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTCAAAGCCCACAAGTCAGTGGCATCTTT
* * * *
1140159 TTCGAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCATCTTT
** * * * * * * * *
1140216 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAGTCC-CAACTCCGTGGCACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCATCTTT
** * * * * * *
1140273 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTTC--AGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTTCAAAGCCCACAAGTCAGTGGCATCTTT
** *
1140333 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAAC--T
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTC-AAAGCCCACAAGTCAGTGGCATCTTT
* * *
1140391 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT-TTC-AAAGCCCACAAGTCAGTGGCATCTTT
* * *
1140450 TTCAAAAGCCCACAAGTCAGGGGCACCCTTTAAAAGCCCACAAGTCAAGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTC-AGTGGCA
1140504 ACCCAAAGCC
Statistics
Matches: 275, Mismatches: 51, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
55 1 0.00
56 15 0.05
57 116 0.42
58 26 0.09
59 38 0.14
60 61 0.22
61 18 0.07
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:1140400 original size:87 final size:88
Alignment explanation
Indices: 1140309--1140503 Score: 338
Period size: 87 Copynumber: 2.2 Consensus size: 88
1140299 GCACTCTTTC
*
1140309 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
*
1140374 ACAAGTCAGTGGCA-ACTTTAAA
66 ACAAGTCAGGGGCACACTTTAAA
1140396 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
*
1140461 ACAAGTCAGGGGCACCCTTTAAA
66 ACAAGTCAGGGGCACACTTTAAA
*
1140484 AGCCCACAAGTCAAGTGGCA
1 AGCCCACAAGT-TAGTGGCA
1140504 ACCCAAAGCC
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
87 77 0.75
88 18 0.18
89 7 0.07
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (88 bp):
AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
ACAAGTCAGGGGCACACTTTAAA
Found at i:1140637 original size:42 final size:42
Alignment explanation
Indices: 1140569--1140653 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
1140559 CTTTTCCATC
*
1140569 TAAGTCCAATGTACCGACCTTGAATCAGCACA-TGGCACCTT
1 TAAGTCCAATATACCGACCTTGAATCAGCACATTGGCACCTT
* * *
1140610 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATA-CCGACCTTGAATCAGCACATTGGCACCTT
1140653 T
1 T
1140654 TCCATCTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 12 0.32
42 16 0.42
43 10 0.26
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (42 bp):
TAAGTCCAATATACCGACCTTGAATCAGCACATTGGCACCTT
Found at i:1140685 original size:52 final size:53
Alignment explanation
Indices: 1140607--1140759 Score: 191
Period size: 52 Copynumber: 2.9 Consensus size: 53
1140597 CACATGGCAC
*
1140607 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
* * * *
1140659 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCTCAG
* * * * * *
1140713 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1140760 ATCAACTTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
52 38 0.45
53 11 0.13
54 35 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
Done.