Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008800.1 Hibiscus syriacus cultivar Beakdansim tig00111950_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 198305
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:2056 original size:16 final size:16
Alignment explanation
Indices: 2035--2089 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
2025 AGTCTTTTTT
2035 TTTTTTTTTCGAACAA
1 TTTTTTTTTCGAACAA
2051 TTTTTTTTTCGAACTGATA
1 TTTTTTTTTCGAAC--A-A
2070 TTTTTTTTTC-AAC-A
1 TTTTTTTTTCGAACAA
2084 TTTTTT
1 TTTTTT
2090 GTGATGGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.19
16 14 0.39
18 4 0.11
19 11 0.31
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTTTTTCGAACAA
Found at i:12871 original size:158 final size:158
Alignment explanation
Indices: 12583--12899 Score: 607
Period size: 158 Copynumber: 2.0 Consensus size: 158
12573 AACGAATTAA
12583 AATAAGCAGGGCAAATACAAACGTTGATTCAAATATATTCAAAATAACATCACACATTCAGATTT
1 AATAAGCAGGGCAAATACAAACGTTGATTCAAATATATTCAAAATAACATCACACATTCAGATTT
*
12648 TTCGTAGAGCACTCAGGTTAGTCTTTTGATATGACAAGAAATTATTCTAAGTCTAGAAATATTTG
66 TTCGTAGAGCACTCAGGTTAGTCTTTTGATATGACAAGAAATTATTCTAAGTATAGAAATATTTG
12713 TTATGATATGCTTAGGTTGCCCGACAGG
131 TTATGATATGCTTAGGTTGCCCGACAGG
* *
12741 AATAAGCAGGGTAAATACAAACGTTGATTCAAATATATTCAAAATAACATCACACATTTAGATTT
1 AATAAGCAGGGCAAATACAAACGTTGATTCAAATATATTCAAAATAACATCACACATTCAGATTT
12806 TTCGTAGAGCACTCAGGTTAGTCTTTTGATATGACAAGAAATTATTCTAAGTATAGAAATATTTG
66 TTCGTAGAGCACTCAGGTTAGTCTTTTGATATGACAAGAAATTATTCTAAGTATAGAAATATTTG
12871 TTATGATATGCTTAGGTTGCCCGACAGG
131 TTATGATATGCTTAGGTTGCCCGACAGG
12899 A
1 A
12900 TTACTGAGTA
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 156 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (158 bp):
AATAAGCAGGGCAAATACAAACGTTGATTCAAATATATTCAAAATAACATCACACATTCAGATTT
TTCGTAGAGCACTCAGGTTAGTCTTTTGATATGACAAGAAATTATTCTAAGTATAGAAATATTTG
TTATGATATGCTTAGGTTGCCCGACAGG
Found at i:16483 original size:16 final size:16
Alignment explanation
Indices: 16462--16502 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
16452 TCGGCGATGA
16462 GGAGAAAATATTTAAG
1 GGAGAAAATATTTAAG
16478 GGAGAAAATATTTAAG
1 GGAGAAAATATTTAAG
*
16494 GGAAAAAAT
1 GGAGAAAAT
16503 TGAAGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (16 bp):
GGAGAAAATATTTAAG
Found at i:20011 original size:45 final size:45
Alignment explanation
Indices: 19936--20057 Score: 111
Period size: 45 Copynumber: 2.7 Consensus size: 45
19926 GACCAAATGT
* * * ** * **
19936 TCTTTCCCTAAAAATTCTCAACAATCACCTCCTTTAACC-TATTGT
1 TCTTTCCCTAAACATCCTCAATAAGAACCTCCTTTAACCGGA-TAC
* * * *
19981 TCTTTCCTTGAACATCCTCAATAAGAACCTCATTTGACCGGATAC
1 TCTTTCCCTAAACATCCTCAATAAGAACCTCCTTTAACCGGATAC
*
20026 TCTTTCCCTAAACATCCTCAATAAGTACCTCC
1 TCTTTCCCTAAACATCCTCAATAAGAACCTCC
20058 ATTGACCCTT
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
45 59 0.98
46 1 0.02
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.34
Consensus pattern (45 bp):
TCTTTCCCTAAACATCCTCAATAAGAACCTCCTTTAACCGGATAC
Found at i:24550 original size:63 final size:65
Alignment explanation
Indices: 24396--24551 Score: 189
Period size: 65 Copynumber: 2.4 Consensus size: 65
24386 TACACTAGGG
* *
24396 TGTGCATCGGTGCACAAATTTGC-TTCGATATTTCAAAAATAGTCGAGGTGCATCGATGCATGAC
1 TGTGCATCGGTGCACAAA-ATGCATTCGATATTTCAAAAATAATCGAGGTGCATCGATGCATGAC
24460 T
65 T
24461 TGTGCATCGGTGCACAAAAT-CAATTCGATATTT-AAAAA-AATCCTGA-GTGCATCGATGCATG
1 TGTGCATCGGTGCACAAAATGC-ATTCGATATTTCAAAAATAAT-C-GAGGTGCATCGATGCATG
*
24522 -GT
63 ACT
* *
24524 TTTGCATCGGTGCATAAAATGCATTCGA
1 TGTGCATCGGTGCACAAAATGCATTCGA
24552 AATGGGTGTG
Statistics
Matches: 81, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
63 28 0.35
64 23 0.28
65 30 0.37
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (65 bp):
TGTGCATCGGTGCACAAAATGCATTCGATATTTCAAAAATAATCGAGGTGCATCGATGCATGACT
Found at i:24964 original size:20 final size:23
Alignment explanation
Indices: 24910--24966 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
24900 CAATTTTGAA
24910 ATTACTCCCCCTTACTATAATACTT
1 ATTAC-CCCCCTTACTATAATAC-T
*
24935 ATTACTCCCCTTACTATAATA-T
1 ATTACCCCCCTTACTATAATACT
24957 -TT-CCCCCCTT
1 ATTACCCCCCTT
24967 TTTGTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 7 0.23
21 2 0.07
22 1 0.03
24 15 0.50
25 5 0.17
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTACCCCCCTTACTATAATACT
Found at i:27292 original size:23 final size:23
Alignment explanation
Indices: 27219--27294 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
27209 ACATAGTGTT
*
27219 TCGATGCACATTCAAGGCATGCA
1 TCGATGCACATTCAAGGGATGCA
* * * *
27242 ACGGTGCACTTTC-ATGG-TG-A
1 TCGATGCACATTCAAGGGATGCA
27262 TTCGATGCACATTCAAGGGATGCA
1 -TCGATGCACATTCAAGGGATGCA
27286 TCGATGCAC
1 TCGATGCAC
27295 TAACTAGTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
20 1 0.03
21 12 0.30
22 5 0.12
23 21 0.52
24 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (23 bp):
TCGATGCACATTCAAGGGATGCA
Found at i:27310 original size:20 final size:20
Alignment explanation
Indices: 27285--27333 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
27275 CAAGGGATGC
27285 ATCGATGCACTAACTAGTGT
1 ATCGATGCACTAACTAGTGT
27305 ATCGATGCACTAACTAGTGT
1 ATCGATGCACTAACTAGTGT
*
27325 GTCGATGCA
1 ATCGATGCA
27334 TTAAGCACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (20 bp):
ATCGATGCACTAACTAGTGT
Found at i:31192 original size:22 final size:21
Alignment explanation
Indices: 31151--31193 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
31141 AAGACTATTT
*
31151 TCATTTTTCAATTTTTAAATA
1 TCATTTTTCAATTTTAAAATA
31172 TCATTTTT-ATATTTTGAAAATA
1 TCATTTTTCA-ATTTT-AAAATA
31194 AAGTCTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 13 0.68
22 5 0.26
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:33164 original size:65 final size:64
Alignment explanation
Indices: 33084--33240 Score: 176
Period size: 65 Copynumber: 2.4 Consensus size: 64
33074 TACACTAGGG
* * *** *
33084 TGTGCATCGGGGCACAAATTTGCTTCGATGTTTCAA-AAATAGT-CGGGGTGCATCGATGCATGA
1 TGTGCATCGGTGCACAAAATCAATTCGATGTTTCAATAAA-A-TCCGGAGTGCATCGATGCATG-
33147 CT
63 CT
* *
33149 TGTGCATCGGTGCACAAAATCAATTCGATGTTTCAATAAAATCCTGAGTGCATCGATGCATGGT
1 TGTGCATCGGTGCACAAAATCAATTCGATGTTTCAATAAAATCCGGAGTGCATCGATGCATGCT
*
33213 TGTGCATCGGTGCATAAAATGC-ATTCGA
1 TGTGCATCGGTGCACAAAAT-CAATTCGA
33241 AGTGGGTGTG
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
64 27 0.34
65 50 0.62
66 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (64 bp):
TGTGCATCGGTGCACAAAATCAATTCGATGTTTCAATAAAATCCGGAGTGCATCGATGCATGCT
Found at i:35445 original size:71 final size:72
Alignment explanation
Indices: 35269--35567 Score: 354
Period size: 72 Copynumber: 4.2 Consensus size: 72
35259 AGACTCCAAC
* ** *
35269 TTAAATGAGGAATTAGTAGCTGATGAGAGC-AGTGATGTTGCTACTTCCCAAGATGCATAAAAAA
1 TTAAATGAGAAATCGGTAGCTGATGAGA-CTAGTGATGTTGCTACTTCCCAAGATGCATACAAAA
35333 TCAAGAAG
65 TCAAGAAG
* * * *
35341 TTAATTGAGAAATCGGTAGTTGATGAGACTAGTGATGTTACTATTTCCCAAGATGCATACAAAAT
1 TTAAATGAGAAATCGGTAGCTGATGAGACTAGTGATGTTGCTACTTCCCAAGATGCATACAAAAT
*
35406 -AATAAG
66 CAAGAAG
** * * ***
35412 TTAAATGAGAAATTTGTAGCTGATGAGACTAGTGATGTTGCTATTTCCCAAGATGAATTTGAAAT
1 TTAAATGAGAAATCGGTAGCTGATGAGACTAGTGATGTTGCTACTTCCCAAGATGCATACAAAAT
* *
35477 CGAGAAC
66 CAAGAAG
* *
35484 TGAAATGAGAAATCGGTAGCTGATGAGACCAGTGATGTT-CTTACTTCCCAAGATGCATAC-AAA
1 TTAAATGAGAAATCGGTAGCTGATGAGACTAGTGATGTTGC-TACTTCCCAAGATGCATACAAAA
*
35547 TCGAGAAG
65 TCAAGAAG
*
35555 TTAAATAAGAAAT
1 TTAAATGAGAAAT
35568 GTTGATTGAT
Statistics
Matches: 192, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
71 84 0.44
72 108 0.56
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (72 bp):
TTAAATGAGAAATCGGTAGCTGATGAGACTAGTGATGTTGCTACTTCCCAAGATGCATACAAAAT
CAAGAAG
Found at i:35532 original size:143 final size:143
Alignment explanation
Indices: 35269--35546 Score: 398
Period size: 143 Copynumber: 1.9 Consensus size: 143
35259 AGACTCCAAC
* *
35269 TTAAATGAGGAATTAGTAGCTGATGAGAGCAGTGATGTTGCTACTTCCCAAGATGCATAAAAAAT
1 TTAAATGAGAAATTAGTAGCTGATGAGAGCAGTGATGTTGCTACTTCCCAAGATGAATAAAAAAT
* * * * * *
35334 CAAGAAGTTAATTGAGAAATCGGTAGTTGATGAGACTAGTGATGTTACTATTTCCCAAGATGCAT
66 CAAGAACTGAAATGAGAAATCGGTAGCTGATGAGACCAGTGATGTTACTACTTCCCAAGATGCAT
35399 ACAAAATAATAAG
131 ACAAAATAATAAG
* * ***
35412 TTAAATGAGAAATTTGTAGCTGATGAGA-CTAGTGATGTTGCTATTTCCCAAGATGAATTTGAAA
1 TTAAATGAGAAATTAGTAGCTGATGAGAGC-AGTGATGTTGCTACTTCCCAAGATGAATAAAAAA
*
35476 TCGAGAACTGAAATGAGAAATCGGTAGCTGATGAGACCAGTGATGTT-CTTACTTCCCAAGATGC
65 TCAAGAACTGAAATGAGAAATCGGTAGCTGATGAGACCAGTGATGTTAC-TACTTCCCAAGATGC
35540 ATACAAA
129 ATACAAA
35547 TCGAGAAGTT
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
142 2 0.02
143 117 0.98
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (143 bp):
TTAAATGAGAAATTAGTAGCTGATGAGAGCAGTGATGTTGCTACTTCCCAAGATGAATAAAAAAT
CAAGAACTGAAATGAGAAATCGGTAGCTGATGAGACCAGTGATGTTACTACTTCCCAAGATGCAT
ACAAAATAATAAG
Found at i:38787 original size:21 final size:20
Alignment explanation
Indices: 38759--38797 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
38749 ATGTGCAATA
* *
38759 ATTTATGGTTTCGACAAAAG
1 ATTTATGGCTTAGACAAAAG
38779 ATTTCATGGCTTAGACAAA
1 ATTT-ATGGCTTAGACAAA
38798 GGCCTTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
ATTTATGGCTTAGACAAAAG
Found at i:40035 original size:41 final size:42
Alignment explanation
Indices: 39990--40092 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 42
39980 TATCTGGCAT
* *
39990 AGTATGACAATTTTTACCAAGGCGATATTTT-CATCTTAAGG
1 AGTATGACAATTTTTACCAAGGCGATATTTTACAGCCTAAGG
* *
40031 AGTATGACAACTTTGGTTA-C--GGTGATATTTTACAGCCTGAGG
1 AGTATGACAA-TTT--TTACCAAGGCGATATTTTACAGCCTAAGG
*
40073 AGTATGACAATTTTTTCCAA
1 AGTATGACAATTTTTACCAA
40093 TGAAATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
39 2 0.04
40 1 0.02
41 23 0.46
42 20 0.40
43 1 0.02
44 3 0.06
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (42 bp):
AGTATGACAATTTTTACCAAGGCGATATTTTACAGCCTAAGG
Found at i:46773 original size:22 final size:22
Alignment explanation
Indices: 46747--46815 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 22
46737 AGAAGTCAAA
46747 TATTTTTAGCCTTAGCAAATTT
1 TATTTTTAGCCTTAGCAAATTT
46769 TATTTACTTA-CTCTT-GC-AA-TT
1 TATTT--TTAGC-CTTAGCAAATTT
* *
46790 AATTTTT-GCCTTAGCAATTTT
1 TATTTTTAGCCTTAGCAAATTT
46811 TATTT
1 TATTT
46816 GTTTACTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 15
0.67 0.05 0.27
Matches are distributed among these distances:
18 3 0.08
19 5 0.14
20 1 0.03
21 12 0.32
22 7 0.19
23 3 0.08
24 6 0.16
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (22 bp):
TATTTTTAGCCTTAGCAAATTT
Found at i:46812 original size:42 final size:43
Alignment explanation
Indices: 46748--46828 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
46738 GAAGTCAAAT
46748 ATTTTTAGCCTTAGCAAATTTTATTTACTTACTCTTGCAATTA
1 ATTTTTAGCCTTAGCAAATTTTATTTACTTACTCTTGCAATTA
* **
46791 ATTTTT-GCCTTAGCAATTTTTATTTGTTTACTCTTGCA
1 ATTTTTAGCCTTAGCAAATTTTATTTACTTACTCTTGCA
46829 TATTTTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 29 0.83
43 6 0.17
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (43 bp):
ATTTTTAGCCTTAGCAAATTTTATTTACTTACTCTTGCAATTA
Found at i:47826 original size:111 final size:111
Alignment explanation
Indices: 47632--47838 Score: 297
Period size: 111 Copynumber: 1.9 Consensus size: 111
47622 CAAAGTGCCG
* * ** * * *
47632 AAATGGTCATTCACCTACTATGAATACCATGAGTGGCACCTTTTATGCCGAAAATAGATCGTTAT
1 AAATGGTAATTCACCTACTATGAATACCATGAGTGGAACCTTTTATGCAAAAAATACACCGATAT
*
47697 ATATTAAACAAAATCGATCGATAACTTTCATACACGATGTATGTCA
66 ACATTAAACAAAATCGATCGATAACTTTCATACACGATGTATGTCA
** * *
47743 AAATGGTAATTCACCTTTTATGAATACCATGGGTGGAACCTTTTATGCAAAAAATTCACCGATAT
1 AAATGGTAATTCACCTACTATGAATACCATGAGTGGAACCTTTTATGCAAAAAATACACCGATAT
*
47808 GCATTAAACAAAATCGATCGATAACTTTCAT
66 ACATTAAACAAAATCGATCGATAACTTTCAT
47839 TTATGTCACC
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
111 83 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (111 bp):
AAATGGTAATTCACCTACTATGAATACCATGAGTGGAACCTTTTATGCAAAAAATACACCGATAT
ACATTAAACAAAATCGATCGATAACTTTCATACACGATGTATGTCA
Found at i:48567 original size:21 final size:21
Alignment explanation
Indices: 48543--48594 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
48533 CTCACAACAA
48543 TATCGATATTACTTGCATCAG
1 TATCGATATTACTTGCATCAG
48564 TATCGATATTACTTGCATCAG
1 TATCGATATTACTTGCATCAG
48585 TATCGATATT
1 TATCGATATT
48595 GTTCATCGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
TATCGATATTACTTGCATCAG
Found at i:57487 original size:30 final size:32
Alignment explanation
Indices: 57442--57512 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
57432 TAAGCCTTAT
* * *
57442 AAAAATTATGGGGACC-ATTCTA-TAATTTTTG
1 AAAAGTTATGGGGACCAAATC-AGTAATTATTG
57473 AAAAGTTA-GGGGACCAAATCAGTAATTATTG
1 AAAAGTTATGGGGACCAAATCAGTAATTATTG
57504 AAAAGTTAT
1 AAAAGTTAT
57513 TGATTGTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.32
Consensus pattern (32 bp):
AAAAGTTATGGGGACCAAATCAGTAATTATTG
Found at i:66791 original size:32 final size:31
Alignment explanation
Indices: 66755--66831 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
66745 CGGGGCCGTG
*
66755 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
66787 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
66818 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
66832 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:67713 original size:7 final size:7
Alignment explanation
Indices: 67701--67731 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
67691 GTCAAAGAAA
67701 GTCAACG
1 GTCAACG
67708 GTCAACG
1 GTCAACG
67715 GTCAACG
1 GTCAACG
67722 GTCAACG
1 GTCAACG
67729 GTC
1 GTC
67732 GGGTCGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:67750 original size:22 final size:22
Alignment explanation
Indices: 67722--67785 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
67712 ACGGTCAACG
*
67722 GTCAACGGTCGGGTCGGGTTGA
1 GTCAACGGTCGGGTCGGGTCGA
*
67744 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGA
67766 GTCAACGGTCGGGTCGGGTC
1 GTCAACGGTCGGGTCGGGTC
67786 AGACCGGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.20
Consensus pattern (22 bp):
GTCAACGGTCGGGTCGGGTCGA
Found at i:67800 original size:9 final size:9
Alignment explanation
Indices: 67782--67859 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
67772 GGTCGGGTCG
*
67782 GGTCAGACC
1 GGTCAAACC
67791 GGTCAAACC
1 GGTCAAACC
* *
67800 GATTCAGACC
1 G-GTCAAACC
67810 GGTCAAACC
1 GGTCAAACC
*
67819 GGTTCGAACC
1 GG-TCAAACC
* *
67829 GGTTGAAATC
1 GG-TCAAACC
67839 GGTCAAACC
1 GGTCAAACC
67848 GGTCAAACC
1 GGTCAAACC
67857 GGT
1 GGT
67860 TTCCAGCAGC
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
9 34 0.61
10 22 0.39
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:67829 original size:19 final size:18
Alignment explanation
Indices: 67788--67860 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 18
67778 GTCGGGTCAG
*
67788 ACCGGTCAAACCGATTCA
1 ACCGGTCAAACCGGTTCA
67806 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTC-A
* *
67826 ACCGGTTGAAATCGG-TCAA
1 ACCGG-TCAAACCGGTTC-A
67845 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
67861 TCCAGCAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 7 0.16
19 30 0.67
20 8 0.18
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.18
Consensus pattern (18 bp):
ACCGGTCAAACCGGTTCA
Found at i:67830 original size:38 final size:38
Alignment explanation
Indices: 67788--67860 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
67778 GTCGGGTCAG
* *
67788 ACCGG-TCAAACCGATTCAGACCGGTCAAACCGGTTCGA
1 ACCGGTTCAAACCG-GTCAAACCGGTCAAACCGGTTCGA
* *
67826 ACCGGTTGAAATCGGTCAAACCGGTCAAACCGGTT
1 ACCGGTTCAAACCGGTCAAACCGGTCAAACCGGTT
67861 TCCAGCAGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 24 0.80
39 6 0.20
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.18
Consensus pattern (38 bp):
ACCGGTTCAAACCGGTCAAACCGGTCAAACCGGTTCGA
Found at i:73834 original size:32 final size:31
Alignment explanation
Indices: 73798--73874 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
73788 TGGGGCCGTG
*
73798 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
73830 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
73861 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
73875 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:73857 original size:63 final size:63
Alignment explanation
Indices: 73751--73874 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
73741 CCCTAAGGGA
* ** ** *
73751 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTTGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
73814 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAGA
73875 GTCACATTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 1 0.02
63 47 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:74756 original size:7 final size:7
Alignment explanation
Indices: 74744--74774 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
74734 GTCAAAGAAA
74744 GTCAACG
1 GTCAACG
74751 GTCAACG
1 GTCAACG
74758 GTCAACG
1 GTCAACG
74765 GTCAACG
1 GTCAACG
74772 GTC
1 GTC
74775 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:74781 original size:5 final size:5
Alignment explanation
Indices: 74771--74828 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
74761 AACGGTCAAC
* *
74771 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
74820 GGTCG GGTC
1 GGTCG GGTC
74829 AGACCGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:74792 original size:22 final size:22
Alignment explanation
Indices: 74764--74828 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
74754 AACGGTCAAC
74764 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
74786 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
74808 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
74829 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:74862 original size:28 final size:27
Alignment explanation
Indices: 74825--74913 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 27
74815 GGTCGGGTCG
* * *
74825 GGTCAGACCGGTCAAACCGATTCAGACC
1 GGTCAAACCGGTCAAACCG-GTCAAACC
*
74853 GGTCAAACCGGTTGAAACCGGTCAAACC
1 GGTCAAACCGG-TCAAACCGGTCAAACC
*
74881 GGTCAGAACCGGTTGAAAACCGGTCAAACC
1 GGTCA-AACCGG-T-CAAACCGGTCAAACC
74911 GGT
1 GGT
74914 TTCCAGCAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
28 21 0.40
29 15 0.28
30 17 0.32
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.15
Consensus pattern (27 bp):
GGTCAAACCGGTCAAACCGGTCAAACC
Found at i:74870 original size:10 final size:9
Alignment explanation
Indices: 74825--74913 Score: 88
Period size: 9 Copynumber: 9.3 Consensus size: 9
74815 GGTCGGGTCG
*
74825 GGTCAGACC
1 GGTCAAACC
74834 GGTCAAACC
1 GGTCAAACC
* *
74843 GATTCAGACC
1 G-GTCAAACC
74853 GGTCAAACC
1 GGTCAAACC
*
74862 GGTTGAAACC
1 GG-TCAAACC
74872 GGTCAAACC
1 GGTCAAACC
74881 GGTCAGAACC
1 GGTCA-AACC
*
74891 GGTTGAAAACC
1 GG-T-CAAACC
74902 GGTCAAACC
1 GGTCAAACC
74911 GGT
1 GGT
74914 TTCCAGCAGC
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
9 36 0.55
10 22 0.33
11 7 0.11
12 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:74882 original size:19 final size:19
Alignment explanation
Indices: 74831--74913 Score: 89
Period size: 19 Copynumber: 4.3 Consensus size: 19
74821 GTCGGGTCAG
* *
74831 ACCGGTCAAACCGATTCAG
1 ACCGGTCAAACCGGTTCAA
*
74850 ACCGGTCAAACCGGTTGAA
1 ACCGGTCAAACCGGTTCAA
74869 ACCGGTCAAACCGG-TCAGA
1 ACCGGTCAAACCGGTTCA-A
*
74888 ACCGGTTGAAAACCGG-TCAA
1 ACCGG-T-CAAACCGGTTCAA
74908 ACCGGT
1 ACCGGT
74914 TTCCAGCAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
18 2 0.04
19 37 0.66
20 7 0.12
21 10 0.18
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.14
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:74903 original size:30 final size:28
Alignment explanation
Indices: 74850--74913 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 28
74840 ACCGATTCAG
74850 ACCGGTCAAACCGGTTGAAACCGGTCAA
1 ACCGGTCAAACCGGTTGAAACCGGTCAA
74878 ACCGGTCAGAACCGGTTGAAAACCGGTCAA
1 ACCGGTCA-AACCGGTTG-AAACCGGTCAA
74908 ACCGGT
1 ACCGGT
74914 TTCCAGCAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.24
29 9 0.26
30 17 0.50
ACGTcount: A:0.31, C:0.28, G:0.27, T:0.14
Consensus pattern (28 bp):
ACCGGTCAAACCGGTTGAAACCGGTCAA
Found at i:74912 original size:20 final size:21
Alignment explanation
Indices: 74876--74914 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
74866 GAAACCGGTC
74876 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
74897 AAACCGGTCA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
74915 TCCAGCAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:79277 original size:28 final size:27
Alignment explanation
Indices: 79246--79314 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
79236 TATTCCAGGG
*
79246 TTTAGAGGTACATTAGGTTATTTTACAC
1 TTTAGAGGTACATTA-GTCATTTTACAC
*
79274 TTTA-AGG-GCATTTTAGTCATTTTACAC
1 TTTAGAGGTACA--TTAGTCATTTTACAC
*
79301 TTTAGGGGTA-ATTA
1 TTTAGAGGTACATTA
79315 TATAATTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
26 5 0.15
27 18 0.55
28 10 0.30
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (27 bp):
TTTAGAGGTACATTAGTCATTTTACAC
Found at i:80244 original size:15 final size:14
Alignment explanation
Indices: 80208--80249 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
80198 GGTCAAAGTC
*
80208 GACGGGTTGACTCA
1 GACGAGTTGACTCA
80222 GACGAGTTGACTCA
1 GACGAGTTGACTCA
*
80236 GATCGAGTTAACTC
1 GA-CGAGTTGACTC
80250 TGTGACTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (14 bp):
GACGAGTTGACTCA
Found at i:84949 original size:92 final size:92
Alignment explanation
Indices: 84784--84990 Score: 308
Period size: 92 Copynumber: 2.2 Consensus size: 92
84774 GAGTGTTTCC
* * *
84784 TTCTTGTTCGAATAGAGGAAAGAATGTTATACGTATTGAATTGTTTAATTCTATTGCCATAAATA
1 TTCTTGTTCGAATAGAGGAAAGAATGTTATACCTATTGAATTGTTTAATCCTATTGCCATAAAGA
**
84849 TTGCATGAATATGTATGTGGTAAAATG
66 TTGCATGAATACATATGTGGTAAAATG
* *
84876 TTCTTGTTCGAATAGAGGAAATAATGTTATACCTATTGAATTGTTTAATCCGT-TTGCCATATAG
1 TTCTTGTTCGAATAGAGGAAAGAATGTTATACCTATTGAATTGTTTAATCC-TATTGCCATAAAG
* *
84940 ATTGTATGAATACATATGTGGTGAAATG
65 ATTGCATGAATACATATGTGGTAAAATG
*
84968 TTCTTGTTCGAATGGAGGAAAGA
1 TTCTTGTTCGAATAGAGGAAAGA
84991 TTGAAATGTA
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 102 0.99
93 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (92 bp):
TTCTTGTTCGAATAGAGGAAAGAATGTTATACCTATTGAATTGTTTAATCCTATTGCCATAAAGA
TTGCATGAATACATATGTGGTAAAATG
Found at i:88768 original size:20 final size:22
Alignment explanation
Indices: 88720--88774 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 22
88710 ATATAATAAT
88720 ATACGTAAAATAAATACATGATAC
1 ATACGTAAAATAAATACA--ATAC
88744 TATACGTAAAATAAATAC-ATA-
1 -ATACGTAAAATAAATACAATAC
*
88765 ATACATAAAA
1 ATACGTAAAA
88775 CATACTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 9 0.31
22 3 0.10
25 17 0.59
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.25
Consensus pattern (22 bp):
ATACGTAAAATAAATACAATAC
Found at i:88768 original size:25 final size:25
Alignment explanation
Indices: 88707--88768 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
88697 TACACAATGT
* *
88707 AATATATAATAATATACGTAAAATA
1 AATACATAATACTATACGTAAAATA
*
88732 AATACATGATACTATACGTAAAATA
1 AATACATAATACTATACGTAAAATA
88757 AATACATAATAC
1 AATACATAATAC
88769 ATAAAACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (25 bp):
AATACATAATACTATACGTAAAATA
Found at i:91290 original size:37 final size:37
Alignment explanation
Indices: 91249--91365 Score: 121
Period size: 37 Copynumber: 3.2 Consensus size: 37
91239 CGAGACGAAG
*
91249 TTTGTTTTAAGAAAAATAATATCGAGTGAGATAAAAT
1 TTTGTTTTAAGAAAAATAATCTCGAGTGAGATAAAAT
** * * * ** *
91286 TTTGTTTCGAGTGAAAAT-GTCTCAAGTGAGA-CGAAG
1 TTTGTTTTAAG-AAAAATAATCTCGAGTGAGATAAAAT
*
91322 TTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAAT
1 TTTGTTTTAAGAAAAATAATCTCGAGTGAGATAAAAT
91359 TTTGTTT
1 TTTGTTT
91366 CGAGTAAAAC
Statistics
Matches: 59, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
35 4 0.07
36 22 0.37
37 28 0.47
38 5 0.08
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (37 bp):
TTTGTTTTAAGAAAAATAATCTCGAGTGAGATAAAAT
Found at i:91327 original size:73 final size:73
Alignment explanation
Indices: 91151--91394 Score: 289
Period size: 73 Copynumber: 3.3 Consensus size: 73
91141 ATTTCAAGGG
* * ** * * *
91151 AAACTTTCTCAAGCGAGGTGAAATTTGTTTTAAG-AAAGCAAT-CCGAAGTGAGATAAAATTTCT
1 AAACTGTCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACAATATCG-AGTGAGATAAAA-TT-T
*
91214 TGTTTTGAGTAA
63 TGTTTCGAGT-A
* *
91226 AAACTGTGTCAA-TCGAGACGAAGTTTGTTTTAAGAAAAATAATATCGAGTGAGATAAAATTTTG
1 AAACTGTCTCAAGT-GAGACGAAGTTTGTTTTAAGAAAAACAATATCGAGTGAGATAAAATTTTG
91290 TTTCGAGTGA
65 TTTCGAGT-A
*
91300 AAA-TGTCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTGT
1 AAACTGTCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACAATATCGAGTGAGATAAAATTTTGT
91364 TTCGAGTA
66 TTCGAGTA
* *
91372 AAACTGTCTCAAGCGAGATGAAG
1 AAACTGTCTCAAGTGAGACGAAG
91395 ATCTCTCAAG
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
72 4 0.03
73 80 0.54
74 15 0.10
75 29 0.20
76 18 0.12
77 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (73 bp):
AAACTGTCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACAATATCGAGTGAGATAAAATTTTGT
TTCGAGTA
Found at i:91350 original size:36 final size:35
Alignment explanation
Indices: 91240--91352 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 35
91230 TGTGTCAATC
*
91240 GAGACGAAGTTTGTTTTAAGAAAAATAATATCGAGT
1 GAGACGAAGTTTGTTTTAAGAAAAA-AATCTCGAGT
** * ** * ** *
91276 GAGATAAAATTTTGTTTCGAGTGAAAATGTCTCAAGT
1 GAGA-CGAAGTTTGTTTTAAG-AAAAAAATCTCGAGT
91313 GAGACGAAGTTTGTTTTAAGAAAAACAATCTCGAGT
1 GAGACGAAGTTTGTTTTAAGAAAAA-AATCTCGAGT
91349 GAGA
1 GAGA
91353 TAAAATTTTG
Statistics
Matches: 55, Mismatches: 19, Indels: 6
0.69 0.24 0.08
Matches are distributed among these distances:
35 4 0.07
36 26 0.47
37 21 0.38
38 4 0.07
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (35 bp):
GAGACGAAGTTTGTTTTAAGAAAAAAATCTCGAGT
Found at i:91390 original size:37 final size:37
Alignment explanation
Indices: 91273--91390 Score: 123
Period size: 37 Copynumber: 3.2 Consensus size: 37
91263 AATAATATCG
91273 AGTGAGATAAAATTTTGTTTCGAGTGAAAA-TGTCTCA
1 AGTGAGATAAAATTTTGTTTCGAGT-AAAACTGTCTCA
** * ** * ** *
91310 AGTGAGA-CGAAGTTTGTTTTAAGAAAAACAATCTCG
1 AGTGAGATAAAATTTTGTTTCGAGTAAAACTGTCTCA
91346 AGTGAGATAAAATTTTGTTTCGAGTAAAACTGTCTCA
1 AGTGAGATAAAATTTTGTTTCGAGTAAAACTGTCTCA
*
91383 AGCGAGAT
1 AGTGAGAT
91391 GAAGATCTCT
Statistics
Matches: 60, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
35 4 0.07
36 22 0.37
37 34 0.57
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (37 bp):
AGTGAGATAAAATTTTGTTTCGAGTAAAACTGTCTCA
Found at i:91758 original size:52 final size:52
Alignment explanation
Indices: 91582--91773 Score: 204
Period size: 52 Copynumber: 3.6 Consensus size: 52
91572 TTCTTAATTG
* ** **
91582 TCAAGGAACCCCTAAAAATTAGGCTTAGCTCCTTTCAAATTCATTTGAAATCA
1 TCAAGAAACCCCTAAAAATTAGGCTTAATTTATTTCAAATTCATTTGAAA-CA
* * * * * * * *
91635 TCAAGAAACCTCTGAAAATCAGACTTAGTTTTTTTTTTCAAATTCATTTTAAAAGA
1 TCAAGAAACCCCTAAAAATTAGGCTTA---ATTTATTTCAAATTCA-TTTGAAACA
91691 TCAAGAAACCCCTAAAAATTAGGCTTAATTTATTTCAAATTCATTTGAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAATTTATTTCAAATTCATTTGAAACA
* *
91743 TTAAGAAACCCCTAAAAGTTAGGCTTAATTT
1 TCAAGAAACCCCTAAAAATTAGGCTTAATTT
91774 CTTTGAAAGT
Statistics
Matches: 114, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
52 36 0.32
53 36 0.32
56 36 0.32
57 6 0.05
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (52 bp):
TCAAGAAACCCCTAAAAATTAGGCTTAATTTATTTCAAATTCATTTGAAACA
Found at i:91859 original size:108 final size:110
Alignment explanation
Indices: 91787--91987 Score: 262
Period size: 108 Copynumber: 1.8 Consensus size: 110
91777 TGAAAGTTCT
* * * *
91787 TTTAAAAATCATCAATAAACTTATGAAAATCATACTTAGTTTCTTT-AAA-ATCATTTGAAAATC
1 TTTAAAAATCATCAAGAAACTTATGAAAATCAGACTTAATTTCTTTGAAAGATCATTTAAAAATC
** *
91850 GTCAAGAAACTTCTGAAAATCAAACTTAGTTTCTTTAAAAACTAA
66 GTCAAGAAACCCCTGAAAATCAAACTTAATTTCTTTAAAAACTAA
* * * *
91895 TTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAAAAATC
1 TTTAAAAATCATCAAGAAACTTATGAAAATCAGACTTAATTTCTTTGAAAGATCATTTAAAAATC
** *
91960 GTCAAGAAACTTCTGAAAATCAGACTTA
66 GTCAAGAAACCCCTGAAAATCAAACTTA
91988 GTTTAAAAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 40 0.49
109 3 0.04
110 39 0.48
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (110 bp):
TTTAAAAATCATCAAGAAACTTATGAAAATCAGACTTAATTTCTTTGAAAGATCATTTAAAAATC
GTCAAGAAACCCCTGAAAATCAAACTTAATTTCTTTAAAAACTAA
Found at i:91919 original size:55 final size:54
Alignment explanation
Indices: 91613--91991 Score: 306
Period size: 55 Copynumber: 7.0 Consensus size: 54
91603 GGCTTAGCTC
* * * *
91613 CTTTCAAATTCATTTG-AAATCATCAAGAAACCTCTGAAAATCAGACTTAGTTTTTT
1 CTTTAAAACTCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAG---TTT
* * * * ** * * * *
91669 TTTTCAAATTCATTTTAAAA--GATCAAGAAACCCCTAAAAATTAGGCTTAATTT
1 CTTTAAAACTCATTTGAAAATCG-TCAAGAAACTTCTGAAAATCAGACTTAGTTT
* * * ** * * *
91722 ATTTCAAATTCATTTGAAACAT--T-AAGAAACCCCT-AAAAGTTAGGCTTAATTT
1 CTTTAAAACTCATTTGAAA-ATCGTCAAGAAACTTCTGAAAA-TCAGACTTAGTTT
** * * * * * *
91774 CTTTGAAAGTTCTTTTAAAAATCATCAATAAACTTATGAAAATCATACTTAGTTT
1 CTTT-AAAACTCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTT
*
91829 CTTTAAAA-TCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAAACTTAGTTT
1 CTTTAAAACTCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTT
* *
91882 CTTTAAAAACTAATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTT
1 CTTT-AAAACTCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTT
* *
91937 CTTTGAAAGCTCATTTAAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTT
1 CTTT-AAAACTCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTT
91992 AAAAATTATA
Statistics
Matches: 273, Mismatches: 38, Indels: 25
0.81 0.11 0.07
Matches are distributed among these distances:
51 4 0.01
52 29 0.11
53 75 0.27
54 9 0.03
55 112 0.41
56 41 0.15
57 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (54 bp):
CTTTAAAACTCATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAGTTT
Found at i:92180 original size:2 final size:2
Alignment explanation
Indices: 92167--92326 Score: 284
Period size: 2 Copynumber: 80.0 Consensus size: 2
92157 GTAAGAATTA
*
92167 TG TG TC TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
92209 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
92251 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
92293 TG CG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
92327 AATACACTTA
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 150 1.00
ACGTcount: A:0.01, C:0.02, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:92515 original size:103 final size:103
Alignment explanation
Indices: 92336--92542 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 103
92326 GAATACACTT
92336 AAATGAATCTAAATGTAATGCATGACTTTCTTGTATGCAAAAATGTTAATCAGTAATCATTTTTT
1 AAATGAATCTAAATGTAATGCATGACTTTCTTGTATGCAAAAATGTTAATCAGTAATCATTTTTT
*
92401 CCTTTAAAATGGAGATCTCGATCTTCGTTCACTTGATC
66 CCTTCAAAATGGAGATCTCGATCTTCGTTCACTTGATC
*
92439 AAATGAATTTAAATGTAATGCATGACTTTCTTGTATGCAAAAATGTTAATCAGTAATCATTTTTT
1 AAATGAATCTAAATGTAATGCATGACTTTCTTGTATGCAAAAATGTTAATCAGTAATCATTTTTT
*
92504 CCTTCAAAATGGAGATCTCGGTCTTCGTTCACTTGATC
66 CCTTCAAAATGGAGATCTCGATCTTCGTTCACTTGATC
92542 A
1 A
92543 CTCTTGTATG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (103 bp):
AAATGAATCTAAATGTAATGCATGACTTTCTTGTATGCAAAAATGTTAATCAGTAATCATTTTTT
CCTTCAAAATGGAGATCTCGATCTTCGTTCACTTGATC
Found at i:94180 original size:16 final size:16
Alignment explanation
Indices: 94153--94289 Score: 79
Period size: 16 Copynumber: 8.2 Consensus size: 16
94143 GATCTGCCTA
*
94153 TTTTCTTCTTTCTTTC
1 TTTTCTTTTTTCTTTC
* *
94169 TTTTATTTTTTCTCTC
1 TTTTCTTTTTTCTTTC
94185 TTTT-TTCTTTT-TTTC
1 TTTTCTT-TTTTCTTTC
94200 TTTTTCTCTTTTTCTTCTGC
1 -TTTTCT-TTTTTCTT-T-C
94220 TTTCTCTTTTTT-TTTC
1 TTT-TCTTTTTTCTTTC
* *
94236 -TTT-TTTTCTCTTTG
1 TTTTCTTTTTTCTTTC
*
94250 TTTGTTTTTTTTCTCTT-
1 TTT-TCTTTTTTCT-TTC
94267 TTTTCTGTTTTTACTTTCC
1 TTTTCT-TTTTT-CTTT-C
94286 TTTT
1 TTTT
94290 GTGTGTGTTT
Statistics
Matches: 96, Mismatches: 8, Indels: 31
0.71 0.06 0.23
Matches are distributed among these distances:
13 5 0.05
14 4 0.04
15 9 0.09
16 29 0.30
17 23 0.24
18 9 0.09
19 13 0.14
20 4 0.04
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTTTCTTTC
Found at i:94181 original size:23 final size:21
Alignment explanation
Indices: 94153--94278 Score: 95
Period size: 20 Copynumber: 6.0 Consensus size: 21
94143 GATCTGCCTA
94153 TTTTCTTCTTTCTTTCTTTTATT
1 TTTTCTTCTTT-TTTCTTTT-TT
94176 TTTTCTCTCTTTTTTCTTTTTT
1 TTTTCT-TCTTTTTTCTTTTTT
* *
94198 TCTTT-TTCTCTTTTTC-TTCTG
1 T-TTTCTTCT-TTTTTCTTTTTT
*
94219 CTTTC-TCTTTTTT-TTTCTTT
1 TTTTCTTCTTTTTTCTTT-TTT
* *
94239 TTTTC-TCTTTGTT-TGTTTT
1 TTTTCTTCTTTTTTCTTTTTT
*
94258 TTTTC-TCTTTTTTCTGTTTT
1 TTTTCTTCTTTTTTCTTTTTT
94278 T
1 T
94279 ACTTTCCTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
19 22 0.25
20 27 0.31
21 6 0.07
22 10 0.11
23 17 0.20
24 5 0.06
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTTCTTCTTTTTTCTTTTTT
Found at i:94195 original size:18 final size:18
Alignment explanation
Indices: 94169--94278 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 18
94159 TCTTTCTTTC
*
94169 TTTTATTTTTTCTCTCTT
1 TTTTCTTTTTTCTCTCTT
*
94187 TTTTCTTTTTTTCTTTTTCTCT
1 TTTTC-TTTTTTC--TCTCT-T
*
94209 TTTTCTTCTGCTTTCTCTTTTT
1 TTTTCTT-T--TTTCTC-TCTT
94231 TTTTCTTTTTT-TCTCTT
1 TTTTCTTTTTTCTCTCTT
* *
94248 TGTTTGTTTTTTTTCTCTT
1 T-TTTCTTTTTTCTCTCTT
94267 TTTTCTGTTTTT
1 TTTTCT-TTTTT
94279 ACTTTCCTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 21
0.73 0.07 0.21
Matches are distributed among these distances:
17 4 0.05
18 19 0.26
19 22 0.30
21 7 0.09
22 16 0.22
23 2 0.03
24 4 0.05
ACGTcount: A:0.01, C:0.16, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTTTCTCTCTT
Found at i:94197 original size:9 final size:9
Alignment explanation
Indices: 94161--94283 Score: 81
Period size: 9 Copynumber: 13.8 Consensus size: 9
94151 TATTTTCTTC
*
94161 TTTCTTTCT
1 TTTCTTTTT
*
94170 TTTATTTTT
1 TTTCTTTTT
* *
94179 TCTCTCTTT
1 TTTCTTTTT
94188 TTTC-TTTT
1 TTTCTTTTT
94196 TTTC-TTTT
1 TTTCTTTTT
*
94204 TCTCTTTTT
1 TTTCTTTTT
* **
94213 CTTCTGCTT
1 TTTCTTTTT
*
94222 TCTCTTTTT
1 TTTCTTTTT
94231 TTT-TCTTTT
1 TTTCT-TTTT
*
94240 TTTCTCTTTG
1 TTTCT-TTTT
*
94250 TTTGTTTTT
1 TTTCTTTTT
*
94259 TTTCTCTTT
1 TTTCTTTTT
*
94268 TTTCTGTTT
1 TTTCTTTTT
*
94277 TTACTTT
1 TTTCTTT
94284 CCTTTTGTGT
Statistics
Matches: 86, Mismatches: 25, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
8 15 0.17
9 62 0.72
10 9 0.10
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:94259 original size:55 final size:56
Alignment explanation
Indices: 94153--94273 Score: 137
Period size: 55 Copynumber: 2.2 Consensus size: 56
94143 GATCTGCCTA
*
94153 TTTTCTTCTTTCTTTCTTTTATTTTTTCTCTCTTTTTTCTTTTTTTCTTTTTCTCT-
1 TTTTCTTC-TGCTTTCTTTTATTTTTTCTCTCTTTTTTCTTTTTTTCTTTTTCTCTC
*
94209 TTTTCTTCTGCTTTCTCTTT-TTTTTTCT-T-TTTTTCTCTTTGTTTGT-TTTTTTTCTC
1 TTTTCTTCTGCTTTCT-TTTATTTTTTCTCTCTTTTT-TCTTT-TTT-TCTTTTTCTCTC
94265 TTTT-TTCTG
1 TTTTCTTCTG
94274 TTTTTACTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
53 5 0.09
54 6 0.10
55 31 0.53
56 16 0.28
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (56 bp):
TTTTCTTCTGCTTTCTTTTATTTTTTCTCTCTTTTTTCTTTTTTTCTTTTTCTCTC
Found at i:94269 original size:36 final size:37
Alignment explanation
Indices: 94153--94278 Score: 104
Period size: 36 Copynumber: 3.5 Consensus size: 37
94143 GATCTGCCTA
* * *
94153 TTTTC-TTCTTTCTTTCTTTTAT-TTT-TTCT-CTCTT
1 TTTTCTTTTTTTCTTT-TTTTCTCTTTCTTCTGCTTTT
* * *
94187 TTTTCTTTTTTTCTTTTTCTCTTTTTCTTCTGCTTTC
1 TTTTCTTTTTTTCTTTTTTTCTCTTTCTTCTGCTTTT
* *
94224 TCTT-TTTTTTTCTTTTTTTCTCTTTGTT-TG-TTTT
1 TTTTCTTTTTTTCTTTTTTTCTCTTTCTTCTGCTTTT
*
94258 TTTTCTCTTTTTTCTGTTTTT
1 TTTTCT-TTTTTTCTTTTTTT
94279 ACTTTCCTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
34 15 0.20
35 15 0.20
36 38 0.51
37 6 0.08
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (37 bp):
TTTTCTTTTTTTCTTTTTTTCTCTTTCTTCTGCTTTT
Found at i:98350 original size:25 final size:25
Alignment explanation
Indices: 98322--98382 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
98312 TACACAATGT
*
98322 AATATATAATAATATACGTAAAATA
1 AATACATAATAATATACGTAAAATA
*
98347 AATACATGATAATATACGTAAAATA
1 AATACATAATAATATACGTAAAATA
*
98372 AAGACATAATA
1 AATACATAATA
98383 CATAAAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (25 bp):
AATACATAATAATATACGTAAAATA
Found at i:100754 original size:18 final size:19
Alignment explanation
Indices: 100731--100769 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
100721 TCTTTATAAG
*
100731 ATTTTTGTTTATTT-ATTT
1 ATTTTTGATTATTTGATTT
100749 ATTTTTGATTATTTGATTT
1 ATTTTTGATTATTTGATTT
100768 AT
1 AT
100770 AAATTTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (19 bp):
ATTTTTGATTATTTGATTT
Found at i:101263 original size:16 final size:15
Alignment explanation
Indices: 101240--101299 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 15
101230 TTTAATATAA
101240 TAATAATAATATATT
1 TAATAATAATATATT
101255 TAATAAATAACTAATATAAT
1 TAAT-AATAA-T-ATAT--T
101275 TAATAATATATATTATT
1 TAATAATA-ATA-TATT
101292 TAATAATA
1 TAATAATA
101300 TAATATATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
15 4 0.11
16 5 0.13
17 10 0.26
18 5 0.13
19 8 0.21
20 6 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATAATAATATATT
Found at i:101271 original size:20 final size:19
Alignment explanation
Indices: 101232--101280 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
101222 TTTTTATTTT
101232 TAATATAAT-AATAATAATA
1 TAAT-TAATAAATAATAATA
*
101251 TATTTAATAAATAACTAATA
1 TAATTAATAAATAA-TAATA
101271 TAATTAATAA
1 TAATTAATAA
101281 TATATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 8 0.31
20 14 0.54
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATTAATAAATAATAATA
Found at i:101271 original size:34 final size:38
Alignment explanation
Indices: 101232--101302 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 38
101222 TTTTTATTTT
101232 TAATATAA-TAATAATA-ATA-TATTTAATAA-ATAAC
1 TAATATAATTAATAATATATATTATTTAATAATATAAC
101266 TAATATAATTAATAATATATATTATTTAATAATATAA
1 TAATATAATTAATAATATATATTATTTAATAATATAA
101303 TATATTATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 8 0.24
35 8 0.24
36 3 0.09
37 10 0.30
38 4 0.12
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (38 bp):
TAATATAATTAATAATATATATTATTTAATAATATAAC
Found at i:101295 original size:26 final size:29
Alignment explanation
Indices: 101266--101339 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 29
101256 AATAAATAAC
101266 TAATATAATTAATAATA-TAT-ATTA-TT
1 TAATATAATTAATAATATTATCATTATTT
101292 T-A-ATAATATAAT-ATATTATCATTATTT
1 TAATATAAT-TAATAATATTATCATTATTT
101319 TAATA-AA-TAATTAATATTATC
1 TAATATAATTAA-TAATATTATC
101340 TATAATATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
24 8 0.20
25 8 0.20
26 8 0.20
27 4 0.10
28 11 0.28
29 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
TAATATAATTAATAATATTATCATTATTT
Found at i:101331 original size:22 final size:22
Alignment explanation
Indices: 101269--101346 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 22
101259 AAATAACTAA
*
101269 TATAATTAATAATATATATTATT
1 TATAATAAATAAT-TATATTATT
101292 TAATAATATAATATATTATCATTATT
1 T-ATAATA-AATA-ATTAT-ATTATT
*
101318 T-TAATAAATAATTAATATTATC
1 TATAATAAATAATT-ATATTATT
101340 TATAATA
1 TATAATA
101347 TTTTTATTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
22 9 0.19
23 12 0.26
24 10 0.21
25 7 0.15
26 9 0.19
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
TATAATAAATAATTATATTATT
Found at i:101345 original size:64 final size:62
Alignment explanation
Indices: 101218--101355 Score: 156
Period size: 64 Copynumber: 2.2 Consensus size: 62
101208 AATGCAATAC
* *
101218 AATATTTTTATTT-TTAATATAATAATAATAATATATTTAATAAATAACTAATATAATTAAT
1 AATATTATTATTTAATAATATAATAATAATAATATATTTAATAAATAACTAATATAATTAAT
* * * *
101279 AATATATATTATTTAATAATATAATATATTATCAT-TATTTTAATAAATAATTAATATTATCT-A
1 AATAT-TATTATTTAATAATATAATA-ATAATAATATA-TTTAATAAATAACTAATATAAT-TAA
101342 T
62 T
*
101343 AATATTTTTATTT
1 AATATTATTATTT
101356 CAATTTTAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
61 5 0.08
62 7 0.11
63 19 0.29
64 33 0.51
65 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (62 bp):
AATATTATTATTTAATAATATAATAATAATAATATATTTAATAAATAACTAATATAATTAAT
Found at i:102721 original size:35 final size:35
Alignment explanation
Indices: 102676--102743 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
102666 TTCATGTTCA
102676 AAATTCCAAAACACT-TCAATTACATTCTAAACCCC
1 AAATTCCAAAACACTAT-AATTACATTCTAAACCCC
* *
102711 AAATTTCAAAATACTATAATTACATTCTAAACC
1 AAATTCCAAAACACTATAATTACATTCTAAACC
102744 TTAATTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (35 bp):
AAATTCCAAAACACTATAATTACATTCTAAACCCC
Found at i:102801 original size:35 final size:35
Alignment explanation
Indices: 102749--102822 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
102739 AAACCTTAAT
* *
102749 TTGAAGTATTTTAGAATTTGGGGTTTAAAATGTAA
1 TTGAAGTATTTTAGAATTTGGGGTATAAAATGAAA
* * *
102784 TTGAA-TAGTTTTGGAATTTGGTGTATAGAATGAAA
1 TTGAAGTA-TTTTAGAATTTGGGGTATAAAATGAAA
102819 TTGA
1 TTGA
102823 GGACTGTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (35 bp):
TTGAAGTATTTTAGAATTTGGGGTATAAAATGAAA
Found at i:104408 original size:2 final size:2
Alignment explanation
Indices: 104401--104429 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
104391 GCCCCTTAAA
104401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104430 GAATAGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:106922 original size:32 final size:32
Alignment explanation
Indices: 106884--106944 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
106874 CATAATATAC
106884 TAATATTTTAACAAAAGTGAAATAATATTAAA
1 TAATATTTTAACAAAAGTGAAATAATATTAAA
**
106916 TAATATTTTAATGAAAGTGAAATAATATT
1 TAATATTTTAACAAAAGTGAAATAATATT
106945 TTAGTCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (32 bp):
TAATATTTTAACAAAAGTGAAATAATATTAAA
Found at i:107075 original size:21 final size:19
Alignment explanation
Indices: 107029--107077 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
107019 TATAGACATA
*
107029 AATAATATCAATAAATTAT
1 AATAATATTAATAAATTAT
**
107048 TTTAATATTAATGAAATATAT
1 AATAATATTAAT-AAAT-TAT
107069 AATAATATT
1 AATAATATT
107078 TTTAATAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 9 0.39
20 4 0.17
21 10 0.43
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATAATATTAATAAATTAT
Found at i:107082 original size:24 final size:24
Alignment explanation
Indices: 107061--107114 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
107051 AATATTAATG
* *
107061 AAATATATAATAATATTTTTAATAA
1 AAATA-ATAAAAATATATTTAATAA
*
107086 AAATAATAAAAATATATTTATTAA
1 AAATAATAAAAATATATTTAATAA
107110 TAAAT
1 -AAAT
107115 TTTAAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATAATAAAAATATATTTAATAA
Found at i:107147 original size:15 final size:16
Alignment explanation
Indices: 107122--107152 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
107112 AATTTTAAGT
107122 ATAATATAATATTTTA
1 ATAATATAATATTTTA
107138 ATAA-ATAATATTTTA
1 ATAATATAATATTTTA
107153 GTCTTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATTTTA
Found at i:107216 original size:55 final size:56
Alignment explanation
Indices: 107157--107274 Score: 166
Period size: 56 Copynumber: 2.1 Consensus size: 56
107147 ATTTTAGTCT
* * * *
107157 TAATATTTTTATTTATAAAAATTAAATAATA-TTTTAATAATAATATATACATAAA
1 TAATATTTTCATTCATAAAAATGAAATAATATTTTTAATAATAATATAGACATAAA
* * *
107212 TAATATTTTCATTCATAAAAGTGAAATAGTATTTTTAATAATAATATAGACATCAA
1 TAATATTTTCATTCATAAAAATGAAATAATATTTTTAATAATAATATAGACATAAA
107268 TAATATT
1 TAATATT
107275 AAATGAATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 26 0.47
56 29 0.53
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (56 bp):
TAATATTTTCATTCATAAAAATGAAATAATATTTTTAATAATAATATAGACATAAA
Found at i:107336 original size:195 final size:195
Alignment explanation
Indices: 107135--107522 Score: 758
Period size: 195 Copynumber: 2.0 Consensus size: 195
107125 ATATAATATT
*
107135 TTAATAAATAATATTTTAGTCTTAATATTTTTATTTATAAAAATTAAATAATATTTTAATAATAA
1 TTAATAAATAATATTTTAGTCTTAATATTTTTATTTATAAAAATAAAATAATATTTTAATAATAA
107200 TATATACATAAATAATATTTTCATTCATAAAAGTGAAATAGTATTTTTAATAATAATATAGACAT
66 TATATACATAAATAATATTTTCATTCATAAAAGTGAAATAGTATTTTTAATAATAATATAGACAT
107265 CAATAATATTAAATGAATTATTTTAATACTAAATAAATAATATAATAATATTTAAATAAAAAAAA
131 CAATAATATTAAATGAATTATTTTAATACTAAATAAATAATATAATAATATTTAAATAAAAAAAA
*
107330 TTAATAAATAATATTTTAGTCTTAATGTTTTTATTTATAAAAATAAAATAATATTTTAATAATAA
1 TTAATAAATAATATTTTAGTCTTAATATTTTTATTTATAAAAATAAAATAATATTTTAATAATAA
107395 TATATACATAAATAATATTTTCATTCATAAAAGTGAAATAGTATTTTTAATAATAATATAGACAT
66 TATATACATAAATAATATTTTCATTCATAAAAGTGAAATAGTATTTTTAATAATAATATAGACAT
107460 CAATAATATTAAATGAATTATTTTAATACTAAATAAATAATATAATAATATTTAAATAAAAAA
131 CAATAATATTAAATGAATTATTTTAATACTAAATAAATAATATAATAATATTTAAATAAAAAA
107523 TATTTATTTA
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 191 1.00
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (195 bp):
TTAATAAATAATATTTTAGTCTTAATATTTTTATTTATAAAAATAAAATAATATTTTAATAATAA
TATATACATAAATAATATTTTCATTCATAAAAGTGAAATAGTATTTTTAATAATAATATAGACAT
CAATAATATTAAATGAATTATTTTAATACTAAATAAATAATATAATAATATTTAAATAAAAAAAA
Found at i:107425 original size:55 final size:56
Alignment explanation
Indices: 107352--107469 Score: 157
Period size: 56 Copynumber: 2.1 Consensus size: 56
107342 ATTTTAGTCT
* * * *
107352 TAATGTTTTTATTTATAAAAATAAAATAATA-TTTTAATAATAATATATACATAAA
1 TAATATTTTCATTCATAAAAATAAAATAATATTTTTAATAATAATATAGACATAAA
* * * *
107407 TAATATTTTCATTCATAAAAGTGAAATAGTATTTTTAATAATAATATAGACATCAA
1 TAATATTTTCATTCATAAAAATAAAATAATATTTTTAATAATAATATAGACATAAA
107463 TAATATT
1 TAATATT
107470 AAATGAATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
55 25 0.46
56 29 0.54
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (56 bp):
TAATATTTTCATTCATAAAAATAAAATAATATTTTTAATAATAATATAGACATAAA
Found at i:107568 original size:13 final size:14
Alignment explanation
Indices: 107552--107584 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
107542 AATATAATAA
107552 AATATTTTA-TTTT
1 AATATTTTATTTTT
107565 AATATTTTATTTTT
1 AATATTTTATTTTT
107579 AATATT
1 AATATT
107585 ATAATAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
AATATTTTATTTTT
Found at i:107645 original size:27 final size:26
Alignment explanation
Indices: 107615--107692 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
107605 TGATAAGTAA
107615 TTAATATAATTAATAATATTTATTATT
1 TTAATA-AATTAATAATATTTATTATT
* * *
107642 TTAATAATATGATACAATA-TAATTATT
1 TTAATAA-ATTA-ATAATATTTATTATT
107669 TTAATAAA-TAATTAATATTT-TTAT
1 TTAATAAATTAA-TAATATTTATTAT
107693 AATATTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
24 1 0.02
25 9 0.22
26 3 0.07
27 23 0.56
28 5 0.12
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
TTAATAAATTAATAATATTTATTATT
Found at i:107681 original size:65 final size:63
Alignment explanation
Indices: 107564--107710 Score: 163
Period size: 65 Copynumber: 2.3 Consensus size: 63
107554 TATTTTATTT
* * * * *
107564 TAATA-TTTTATTTTTAATATTATAATAACAATATTATCTTTTGATAAGTAATTAATATAATTAA
1 TAATATTTTTA-TTTTAATAATATAATAACAATATAATATTTTAATAAATAATTAATAT-ATTAA
* * *
107628 TAATATTTATTATTTTAATAATATGAT-ACAATATAATTATTTTAATAAATAATTAATATTTTTA
1 TAATATTT-TTATTTTAATAATATAATAACAATATAA-TATTTTAATAAATAATTAATATATTAA
*
107692 TAATATTTTTATTTCAATA
1 TAATATTTTTATTTTAATA
107711 GAATATTTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
63 10 0.14
64 24 0.34
65 34 0.48
66 3 0.04
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (63 bp):
TAATATTTTTATTTTAATAATATAATAACAATATAATATTTTAATAAATAATTAATATATTAA
Found at i:107768 original size:14 final size:14
Alignment explanation
Indices: 107749--107804 Score: 53
Period size: 13 Copynumber: 4.1 Consensus size: 14
107739 ATGAAAGTTA
107749 AATAATATTTTAAT
1 AATAATATTTTAAT
* *
107763 AATAATATATTCATT
1 AATAATAT-TTTAAT
*
107778 AATAATA-TTAAAT
1 AATAATATTTTAAT
*
107791 AA-ATTATTTTAAT
1 AATAATATTTTAAT
107804 A
1 A
107805 TTTTAAAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 3 0.09
13 12 0.35
14 8 0.24
15 11 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
AATAATATTTTAAT
Found at i:115812 original size:16 final size:16
Alignment explanation
Indices: 115791--115823 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
115781 TAAACGATAA
115791 ATCAATAAATTAAAAT
1 ATCAATAAATTAAAAT
*
115807 ATCAATAAGTTAAAAT
1 ATCAATAAATTAAAAT
115823 A
1 A
115824 ATCGTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (16 bp):
ATCAATAAATTAAAAT
Found at i:126050 original size:18 final size:20
Alignment explanation
Indices: 126022--126060 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
126012 AATTACTCAT
126022 AAAAAATAACCTCA-CAAAC
1 AAAAAATAACCTCACCAAAC
126041 AAAAAA-AACCTCACCAAAC
1 AAAAAATAACCTCACCAAAC
126060 A
1 A
126061 CTCCAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08
Consensus pattern (20 bp):
AAAAAATAACCTCACCAAAC
Found at i:133672 original size:20 final size:20
Alignment explanation
Indices: 133643--133698 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
133633 ATCCAAAATT
* * *
133643 AGTATCGATACCCTATATGA
1 AGTATTGATACCCTAGATCA
*
133663 AGTATTGATACTCCTAGGTCA
1 AGTATTGATAC-CCTAGATCA
133684 AGTATTGATATCCCT
1 AGTATTGATA-CCCT
133699 TTGAGTCTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.33
21 19 0.63
22 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (20 bp):
AGTATTGATACCCTAGATCA
Found at i:141326 original size:45 final size:45
Alignment explanation
Indices: 141277--141515 Score: 284
Period size: 45 Copynumber: 5.3 Consensus size: 45
141267 TATACATCTT
* ** *
141277 TATGCATTTTAAACTCTAACAT-CTTTTATGTTGATAATGCACCCA
1 TATGCA-TTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
* * *
141322 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTACCCA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
* * **
141367 TATACATTTCAAC-CATAGTATGCTTTTCTGTTGATAATGTGCCCA
1 TATGCATTTCAACTC-TAGTATACTTTTCTGTTGATAATGCACCCA
* * * * *
141412 TATACATTTTAAATCTAGCATACTTTTCTATTGATAATGCACCCA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
* *
141457 TATGCATTTCAACTCTAGTATACTTTTCTATTGATAATGCATCCA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
141502 TATGCATTTCAACT
1 TATGCATTTCAACT
141516 ATGGCATCCT
Statistics
Matches: 169, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
44 11 0.07
45 157 0.93
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (45 bp):
TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
Found at i:141435 original size:90 final size:90
Alignment explanation
Indices: 141299--141554 Score: 271
Period size: 90 Copynumber: 2.8 Consensus size: 90
141289 ACTCTAACAT
* * * * * *
141299 CTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAAATATAGCATACTTTTATATTGATAATGCAC
*
141364 CCATATACATTTCAAC-CATAGTATG
66 CCATATACATTTCAACTC-TAGTATA
** * * *
141389 CTTTTCTGTTGATAATGTGCCCATATACATTTTAAATCTAGCATACTTTTCTATTGATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAAATATAGCATACTTTTATATTGATAATGCAC
*
141454 CCATATGCATTTCAACTCTAGTATA
66 CCATATACATTTCAACTCTAGTATA
* * * * * * * ****
141479 CTTTTCTATTGATAATGCATCCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAAATATAGCATACTTTTATATTGATAATGCAC
*
141544 CCGTATACATT
66 CCATATACATT
141555 ATTCTTTTAT
Statistics
Matches: 134, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
90 133 0.99
91 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAAATATAGCATACTTTTATATTGATAATGCAC
CCATATACATTTCAACTCTAGTATA
Found at i:141539 original size:135 final size:135
Alignment explanation
Indices: 141281--141554 Score: 345
Period size: 135 Copynumber: 2.0 Consensus size: 135
141271 CATCTTTATG
*
141281 CATTTTAAACTCTAACATCTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
1 CATTTTAAACTCTAACATCTTTTATATTGATAATGCACCCATATGCATTTCAACTATAGTATACT
* * * * *** **
141346 TTTATGTTGATAATGTACCCATATACATTTCAACCATAGTATGCTTTTCTGTTGATAATGTGCCC
66 TTTATATTGATAATGCACCCATATACATTTCAACCATAGCATGCCTTTCTGCCAATAATGCACCC
141411 ATATA
131 ATATA
* * *
141416 CATTTTAAA-TCTAGCATACTTTTCTATTGATAATGCACCCATATGCATTTCAACTCTAGTATAC
1 CATTTTAAACTCTAACAT-CTTTTATATTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * * * *
141480 TTTTCTATTGATAATGCATCCATATGCATTTCAACTATGGCAT-CCTTTCATGCCAATAATGCAC
65 TTTTATATTGATAATGCACCCATATACATTTCAACCATAGCATGCCTTTC-TGCCAATAATGCAC
*
141544 CCGTATA
129 CCATATA
141551 CATT
1 CATT
141555 ATTCTTTTAT
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
134 12 0.10
135 106 0.90
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (135 bp):
CATTTTAAACTCTAACATCTTTTATATTGATAATGCACCCATATGCATTTCAACTATAGTATACT
TTTATATTGATAATGCACCCATATACATTTCAACCATAGCATGCCTTTCTGCCAATAATGCACCC
ATATA
Found at i:146773 original size:298 final size:298
Alignment explanation
Indices: 146237--146831 Score: 1084
Period size: 298 Copynumber: 2.0 Consensus size: 298
146227 CAAATAGCAC
*
146237 TGGTTCACCCCAAGGTGATACACTTGGTCTGATAAAACCTAGATCAAGTAGATCTTGTAATTGTA
1 TGGTTCACCACAAGGTGATACACTTGGTCTGATAAAACCTAGATCAAGTAGATCTTGTAATTGTA
*
146302 CCTTCAATTCTATGAGTTTGGTTGGAGCCATATGATACGGGGCCATTAAAATAGGATCAATACCC
66 CCTTCAATTCTATGAGTTTGGTTGGAGCCATATGATACGGGGCCATTAAAATAAGATCAATACCC
* *
146367 GAAAATACCTCATTTTTAAATTCAACTTCACTGTCCGAAGGTAAACCAGTTAATTCTTCTGGAAA
131 GAAAATACCTCATTTTTAAATTCAACTTCACTGTCCGAAGGTAAACCAATTAATTCATCTGGAAA
146432 TACATATGAAATTATCGAACTGTGGAAATATCTTCCAATTTAACTTCAGATGCCTGAGTATCCAC
196 TACATATGAAATTATCGAACTGTGGAAATATCTTCCAATTTAACTTCAGATGCCTGAGTATCCAC
146497 CACATAGCTATAAAATCTTGTCAACCTTTTAATAGTAT
261 CACATAGCTATAAAATCTTGTCAACCTTTTAATAGTAT
* *
146535 TGGTTCACCACAAGGTGATACACTTGGTCTGATAAAACCTTGATCAAGTAGCTCTTGTAATTGTA
1 TGGTTCACCACAAGGTGATACACTTGGTCTGATAAAACCTAGATCAAGTAGATCTTGTAATTGTA
*
146600 CCTTTAATTCTATGAGTTTGGTTGGAGCCATATGATACGGGGCCATTAAAATAAGATCAATACCC
66 CCTTCAATTCTATGAGTTTGGTTGGAGCCATATGATACGGGGCCATTAAAATAAGATCAATACCC
146665 GAAAATACCTCATTTTTAAATTCAACTTCACTGTCC-AGAGGTAAACCAATTAATTCATCTGGAA
131 GAAAATACCTCATTTTTAAATTCAACTTCACTGTCCGA-AGGTAAACCAATTAATTCATCTGGAA
* * *
146729 ATACATCTGAAATTCTCGAACTGTGGAAATATCTTCCAATTTAACTTCAGATGTCTGAGTATCCA
195 ATACATATGAAATTATCGAACTGTGGAAATATCTTCCAATTTAACTTCAGATGCCTGAGTATCCA
146794 CCACATAGCTATAAAATCTTGTCAACCTTTTAATAGTA
260 CCACATAGCTATAAAATCTTGTCAACCTTTTAATAGTA
146832 ACTTCTTAGC
Statistics
Matches: 286, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
297 1 0.00
298 285 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (298 bp):
TGGTTCACCACAAGGTGATACACTTGGTCTGATAAAACCTAGATCAAGTAGATCTTGTAATTGTA
CCTTCAATTCTATGAGTTTGGTTGGAGCCATATGATACGGGGCCATTAAAATAAGATCAATACCC
GAAAATACCTCATTTTTAAATTCAACTTCACTGTCCGAAGGTAAACCAATTAATTCATCTGGAAA
TACATATGAAATTATCGAACTGTGGAAATATCTTCCAATTTAACTTCAGATGCCTGAGTATCCAC
CACATAGCTATAAAATCTTGTCAACCTTTTAATAGTAT
Found at i:150229 original size:30 final size:30
Alignment explanation
Indices: 150181--150237 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
150171 ATAATATAAA
* *
150181 AAATCAGGAGTCATATGTATTTAGTATTCG
1 AAATAAGGAGTCAAATGTATTTAGTATTCG
*
150211 AAATAAGGAGTTAAATGTATTTAGTAT
1 AAATAAGGAGTCAAATGTATTTAGTAT
150238 AAAAAAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (30 bp):
AAATAAGGAGTCAAATGTATTTAGTATTCG
Found at i:168883 original size:14 final size:14
Alignment explanation
Indices: 168864--168913 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
168854 TTATTTAAGT
168864 AAATATTATTATTA
1 AAATATTATTATTA
168878 AAATATTA-TATCTA
1 AAATATTATTAT-TA
* * *
168892 AAATTTTATAAATA
1 AAATATTATTATTA
168906 AAATATTA
1 AAATATTA
168914 AGATTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 3 0.10
14 26 0.87
15 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATTATTATTA
Found at i:168923 original size:23 final size:24
Alignment explanation
Indices: 168871--168923 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
168861 AGTAAATATT
**
168871 ATTATTA-AAATATTATATCTAAA
1 ATTATTATAAATAAAATATCTAAA
*
168894 ATT-TTATAAATAAAATAT-TAAG
1 ATTATTATAAATAAAATATCTAAA
168916 ATTATTAT
1 ATTATTAT
168924 GTTTTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTATTATAAATAAAATATCTAAA
Found at i:169195 original size:3 final size:3
Alignment explanation
Indices: 169187--169216 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
169177 TTATATTAAC
*
169187 ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
169217 TAGTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:172147 original size:18 final size:18
Alignment explanation
Indices: 172124--172158 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
172114 TTCCATCCGG
*
172124 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
172142 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
172159 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:177286 original size:18 final size:18
Alignment explanation
Indices: 177263--177297 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
177253 TTCCATACGG
*
177263 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
177281 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
177298 GTCATTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:178627 original size:18 final size:18
Alignment explanation
Indices: 178604--178643 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
178594 ACGGGTCAAC
178604 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
178622 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
178640 GGTC
1 GGTC
178644 GTGACCGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.23, G:0.50, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:182445 original size:18 final size:18
Alignment explanation
Indices: 182422--182456 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
182412 TTCCATCCGG
*
182422 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
182440 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
182457 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:183787 original size:18 final size:18
Alignment explanation
Indices: 183748--183798 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
183738 GGTCAACGAC
*
183748 AGTCAACGGGTCA--ACG
1 AGTCAACGGGTCAGGTCG
183764 -GTCAACGGGTCAGGTCG
1 AGTCAACGGGTCAGGTCG
*
183781 AGTCAACGGGTCGGGTCG
1 AGTCAACGGGTCAGGTCG
183799 GGTCGTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 12 0.40
17 2 0.07
18 16 0.53
ACGTcount: A:0.22, C:0.24, G:0.39, T:0.16
Consensus pattern (18 bp):
AGTCAACGGGTCAGGTCG
Found at i:187600 original size:18 final size:18
Alignment explanation
Indices: 187577--187611 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
187567 TTCCATCCGG
*
187577 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
187595 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
187612 GCCATTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:192717 original size:18 final size:18
Alignment explanation
Indices: 192694--192728 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
192684 TTCCATCCGG
*
192694 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
192712 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
192729 GCCATTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:197804 original size:18 final size:18
Alignment explanation
Indices: 197781--197815 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
197771 TTCCATCCGG
*
197781 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
197799 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
197816 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Done.