Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold126
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: 2080828
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 191490 characters in sequence are not A, C, G, or T
File 8 of 13
Found at i:1123465 original size:20 final size:20
Alignment explanation
Indices: 1123437--1123487 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1123427 GTAGCTTGGA
*
1123437 GTATCAATACATTTAGAAAT
1 GTATTAATACATTTAGAAAT
* **
1123457 GTATTAATACATTTTGATCT
1 GTATTAATACATTTAGAAAT
1123477 GTATTAATACA
1 GTATTAATACA
1123488 AATGAAGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
GTATTAATACATTTAGAAAT
Found at i:1123610 original size:21 final size:21
Alignment explanation
Indices: 1123577--1123616 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1123567 CAGTTAACAG
1123577 ATGTACTGATACATTTATACA
1 ATGTACTGATACATTTATACA
* *
1123598 ATGTATTGGTACATTTATA
1 ATGTACTGATACATTTATA
1123617 ACAAAACTTG
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:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTACTGATACATTTATACA
Found at i:1124522 original size:23 final size:22
Alignment explanation
Indices: 1124496--1124541 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1124486 TCTTTATTTT
*
1124496 TATTTTCGCTTTCAAAATTAAAA
1 TATTTTAGCTTTC-AAATTAAAA
* *
1124519 TATTTTAGTTTTCAATTTAAAA
1 TATTTTAGCTTTCAAATTAAAA
1124541 T
1 T
1124542 CTATTTAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (22 bp):
TATTTTAGCTTTCAAATTAAAA
Found at i:1132269 original size:53 final size:53
Alignment explanation
Indices: 1132189--1132295 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
1132179 TCTACTTAAA
1132189 TCCCATTACAACAAGCCAATTCATCCTCGGTACTCAGAGGATAAATACAGGAG
1 TCCCATTACAACAAGCCAATTCATCCTCGGTACTCAGAGGATAAATACAGGAG
*
1132242 TCCCATTGCAACAAGCCAATTCATCCTCGGTACTCAGAGGATAAATACAGGAG
1 TCCCATTACAACAAGCCAATTCATCCTCGGTACTCAGAGGATAAATACAGGAG
1132295 T
1 T
1132296 TTCACCAGCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (53 bp):
TCCCATTACAACAAGCCAATTCATCCTCGGTACTCAGAGGATAAATACAGGAG
Found at i:1140058 original size:28 final size:27
Alignment explanation
Indices: 1140025--1140093 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
1140015 CAATCTTCAA
1140025 TGGAATCAAGAAAAGTGCTAATCCCTAAG
1 TGGAATCAAGAAAAGTGC-AATCCCT-AG
* *
1140054 -GGAATCATGACAAATTGCAATCCCTAG
1 TGGAATCAAGA-AAAGTGCAATCCCTAG
*
1140081 TAGAATCAAGAAA
1 TGGAATCAAGAAA
1140094 CTCGCGATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.12
28 24 0.71
29 6 0.18
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.20
Consensus pattern (27 bp):
TGGAATCAAGAAAAGTGCAATCCCTAG
Found at i:1140888 original size:33 final size:33
Alignment explanation
Indices: 1140836--1140898 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1140826 GTGGTACCCC
* * *
1140836 CTCTAAAGCTCATATAAGTCGGGGGCAACCATT
1 CTCTAAAGCCCACACAAGTCGGGGGCAACCATT
*
1140869 CTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTCTAAAGCCCACACAAGTCGGGGGCAACC
1140899 CTTTTTAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (33 bp):
CTCTAAAGCCCACACAAGTCGGGGGCAACCATT
Found at i:1141101 original size:52 final size:52
Alignment explanation
Indices: 1141023--1141650 Score: 416
Period size: 52 Copynumber: 12.0 Consensus size: 52
1141013 TCTTTACCAC
* * * *
1141023 CTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCATATTGGAACCTTTGTCAT
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * * *
1141075 CTTTAAGCCCAATGTCACTAGCCTTGAATCAGCACATTAGCACCTTTGTCAT
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * *
1141127 CTTTAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCA-CATT-TC-T
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * * *
1141176 TTTTAAAGTCCAATATCGTTAGCCTTGAATCAGCATATTAGCACATTTGTCGT
1 CTTT-AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * * *
1141229 CTTTAAGCCCAATATCGCT-GGCTTGAATCAGCACATTAGCACCTTTTTC-T
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * * *** *
1141279 TTCTTAAGTCTAATATCGCTAGCCTTAAATCAACATATTGGTGTCTTTTTCAT
1 CT-TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * * * *
1141332 CTTTAAGTCTAATGTCGCTGGCTTTGAATCAGTATATTGGCACCTTTTTC-T
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * ** *
1141383 TTCTTAATTCTGATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTGTCAT
1 CT-TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * * * ** * *
1141436 -TCCTAAG-CCAATGTCGTTGGCCTTGAATCAGAACGTTGGCA-TTCTTCTCAT
1 CT-TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCT-TTGTCAT
* * * * * * * * * *
1141487 CTTCAAGTCTAATGTTGCTGGTCGTGAATCAGCACATTGGCA-TTTTCG-CAA
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTT-GTCAT
* * *
1141538 CTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCATATTTATCATTCTTT-TCAT
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGC------A-C---CTTTGTCAT
* * * * *
1141599 CTTTAAGCCCCATATCGCTAGCCGTGAATCAGCATATTGGCAGCTTTATCAT
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
1141651 TTTCTCATCT
Statistics
Matches: 456, Mismatches: 94, Indels: 52
0.76 0.16 0.09
Matches are distributed among these distances:
49 4 0.01
50 39 0.09
51 123 0.27
52 239 0.52
53 7 0.02
55 1 0.00
57 1 0.00
61 39 0.09
62 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCAT
Found at i:1141302 original size:153 final size:154
Alignment explanation
Indices: 1141043--1141319 Score: 405
Period size: 153 Copynumber: 1.8 Consensus size: 154
1141033 AATGTCGCTG
* * *
1141043 GCCTTGAATCAGCATATTGGAACCTTTGTCATCTTTAAGCCCAATGTCACTAGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTAGAACATTTGTCATCTTTAAGCCCAATATCACTAGCCTTGAATCAGC
* *
1141108 ACATTAGCACCTTTGTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCACATT
66 ACATTAGCACCTTTGTCATCTTTAAGCCCAATATCGCTAGCCTTAAATCAACACATTGGCACATT
1141173 TCTTTTTAAAGTCCAATATCGTTA
131 TCTTTTTAAAGTCCAATATCGTTA
* * * *
1141197 GCCTTGAATCAGCATATTAGCACATTTGTCGTCTTTAAGCCCAATATCGCT-GGCTTGAATCAGC
1 GCCTTGAATCAGCATATTAGAACATTTGTCATCTTTAAGCCCAATATCACTAGCCTTGAATCAGC
* * * * *
1141261 ACATTAGCACCTTTTTC-TTTCTTAAGTCTAATATCGCTAGCCTTAAATCAACATATTGG
66 ACATTAGCACCTTTGTCATCT-TTAAGCCCAATATCGCTAGCCTTAAATCAACACATTGG
1141320 TGTCTTTTTC
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
152 2 0.02
153 61 0.56
154 45 0.42
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (154 bp):
GCCTTGAATCAGCATATTAGAACATTTGTCATCTTTAAGCCCAATATCACTAGCCTTGAATCAGC
ACATTAGCACCTTTGTCATCTTTAAGCCCAATATCGCTAGCCTTAAATCAACACATTGGCACATT
TCTTTTTAAAGTCCAATATCGTTA
Found at i:1141402 original size:104 final size:104
Alignment explanation
Indices: 1141023--1141579 Score: 499
Period size: 103 Copynumber: 5.4 Consensus size: 104
1141013 TCTTTACCAC
* * * * * * *
1141023 CTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCATATTGGAACCTTTGTC-ATCTTTAAGCCCAA
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC-TTAAGTCCAA
* * * *
1141087 TGTCACTAGCCTTGAATCAGCACATTAGCACCTTTGTCAT
65 TATCGCTAGCCTTGAATCAGCATATTAGCATCTTTGTCAT
* * *
1141127 CTTTAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCA-C-ATTTCTTT-TTAAAGTCCAA
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTT-AAGTCCAA
* *
1141189 TATCGTTAGCCTTGAATCAGCATATTAGCA-CATTTGTCGT
65 TATCGCTAGCCTTGAATCAGCATATTAGCATC-TTTGTCAT
* * *
1141229 CTTTAAGCCCAATATCGCTGG-CTTGAATCAGCACATTAGCACCTTTTTCTTTCTTAAGTCTAAT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAAT
* * * ** *
1141293 ATCGCTAGCCTTAAATCAACATATTGGTGTCTTTTTCAT
66 ATCGCTAGCCTTGAATCAGCATATTAGCATCTTTGTCAT
* * * * * * **
1141332 CTTTAAGTCTAATGTCGCTGGCTTTGAATCAGTATATTGGCACCTTTTTCTTTCTTAATTCTGAT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAAT
*
1141397 ATCGCTAGCCTTGAATCAGCATATTGGCATCTTTGTCAT
66 ATCGCTAGCCTTGAATCAGCATATTAGCATCTTTGTCAT
* * * * * * *
1141436 -TCCTAAG-CCAATGTCGTTGGCCTTGAATCAGAACGTTGGCA--TTCTTCTCATCTTCAAGTCT
1 CT-TTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCT-TTCTT-AAGTCC
* * * * * * * *
1141497 AATGTTGCTGGTCGTGAATCAGCACATTGGCAT-TTTCG-CAA
63 AATATCGCTAGCCTTGAATCAGCATATTAGCATCTTT-GTCAT
* * *
1141538 CTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCA
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1141580 TATTTATCAT
Statistics
Matches: 373, Mismatches: 66, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
101 28 0.08
102 77 0.21
103 154 0.41
104 114 0.31
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (104 bp):
CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAAT
ATCGCTAGCCTTGAATCAGCATATTAGCATCTTTGTCAT
Found at i:1141633 original size:61 final size:60
Alignment explanation
Indices: 1141527--1141663 Score: 184
Period size: 61 Copynumber: 2.3 Consensus size: 60
1141517 AGCACATTGG
* * * * *
1141527 CATTTTCGCAACTTTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCATATTTAT
1 CATTTTCTCATCTTTAAGCCCAATATCACTAGCCGTGAATCAGCATATTGGCAGATTTAT
* * * *
1141587 CATTCTTTTCATCTTTAAGCCCCATATCGCTAGCCGTGAATCAGCATATTGGCAGCTTTAT
1 CATT-TTCTCATCTTTAAGCCCAATATCACTAGCCGTGAATCAGCATATTGGCAGATTTAT
1141648 CATTTTCTCATCTTTA
1 CATTTTCTCATCTTTA
1141664 TCATCTTCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
60 15 0.23
61 51 0.77
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (60 bp):
CATTTTCTCATCTTTAAGCCCAATATCACTAGCCGTGAATCAGCATATTGGCAGATTTAT
Found at i:1144924 original size:97 final size:95
Alignment explanation
Indices: 1144769--1144949 Score: 245
Period size: 97 Copynumber: 1.9 Consensus size: 95
1144759 TATTTATCGA
** *
1144769 GGACACTCCAACCTTATCCTTTCAAAGGGATACTCTAACCCCGCTTTTAGACTCATCAAAATTTA
1 GGACACTCCAACCCCATCCTTTCAAAGGGATACTCTAACCCCGCTTTTAAACTCATCAAAA--TA
1144834 AATCTAATTTTTGCCTAAATTATCATCGTCAG
64 AATCTAATTTTTGCCTAAATTATCATCGTCAG
* * * * * *
1144866 GGACACTCCAACCCCATCCTTTCAAGGGGATACTCTAACCCTGTTTTTAAACTTATCAAGATAAT
1 GGACACTCCAACCCCATCCTTTCAAAGGGATACTCTAACCCCGCTTTTAAACTCATCAAAATAAA
* *
1144931 TCTTATTTTTGCTTAAATT
66 TCTAATTTTTGCCTAAATT
1144950 GTTAGCGTTG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 20 0.27
97 53 0.73
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (95 bp):
GGACACTCCAACCCCATCCTTTCAAAGGGATACTCTAACCCCGCTTTTAAACTCATCAAAATAAA
TCTAATTTTTGCCTAAATTATCATCGTCAG
Found at i:1148499 original size:35 final size:34
Alignment explanation
Indices: 1148460--1148541 Score: 78
Period size: 35 Copynumber: 2.4 Consensus size: 34
1148450 TCAACTATTT
* *
1148460 TATTTTATTACATC-ATTTATTTTTAAAATAATACA
1 TATTTTATTACATCTAATT-TTTTCAAAAT-ATACA
* *
1148495 TA-TTTATAAACATCTAATTTTTTCAAAATATATA
1 TATTTTAT-TACATCTAATTTTTTCAAAATATACA
*
1148529 TTTTTTATTACAT
1 TATTTTATTACAT
1148542 GTTATTTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
34 14 0.37
35 21 0.55
36 3 0.08
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (34 bp):
TATTTTATTACATCTAATTTTTTCAAAATATACA
Found at i:1150802 original size:2 final size:2
Alignment explanation
Indices: 1150795--1150833 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1150785 TGTGAGTGAG
1150795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1150834 TATTTGAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1151840 original size:15 final size:15
Alignment explanation
Indices: 1151820--1151849 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1151810 GTAGAATATT
1151820 TGAAAAAGACTAACA
1 TGAAAAAGACTAACA
1151835 TGAAAAAGACTAACA
1 TGAAAAAGACTAACA
1151850 GAAGAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
TGAAAAAGACTAACA
Found at i:1152496 original size:34 final size:33
Alignment explanation
Indices: 1152416--1152510 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 33
1152406 CCTTACAACA
* *
1152416 CTATC-TTTC-AAGGCTAAGATAGAAAC-CTCT
1 CTATCTTTTCAAAAGCTAAGATAGAACCTCTCT
* *
1152446 GTATCTTTTCACAAGCTAAGATAGAACCTCTCT
1 CTATCTTTTCAAAAGCTAAGATAGAACCTCTCT
1152479 CTATCTTTTTCAAAAGCTAAGATAGAACCTCT
1 CTATC-TTTTCAAAAGCTAAGATAGAACCTCT
1152511 TAATCACTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.07
31 4 0.07
32 14 0.25
33 8 0.15
34 25 0.45
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (33 bp):
CTATCTTTTCAAAAGCTAAGATAGAACCTCTCT
Found at i:1152973 original size:20 final size:20
Alignment explanation
Indices: 1152948--1153015 Score: 84
Period size: 20 Copynumber: 3.3 Consensus size: 20
1152938 CCATTGGACT
1152948 CAATGTATCGATACTATTCA
1 CAATGTATCGATACTATTCA
**
1152968 CAATGTATCGATAC-ATGAA
1 CAATGTATCGATACTATTCA
1152987 CAGTGATGTATCGATACTATTCA
1 CA---ATGTATCGATACTATTCA
1153010 CAATGT
1 CAATGT
1153016 GTCTAGTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.12
20 18 0.45
22 12 0.30
23 5 0.12
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (20 bp):
CAATGTATCGATACTATTCA
Found at i:1153529 original size:160 final size:159
Alignment explanation
Indices: 1153344--1153666 Score: 637
Period size: 160 Copynumber: 2.0 Consensus size: 159
1153334 AAACATGAAA
1153344 AATTATTTTATGTTTTTCAAAGTATTCTTTACAAAAGCAAATATATTTTTAGCTAATTTGTTATA
1 AATTATTTTATGTTTTTCAAAGTATTCTTTACAAAAGCAAATATATTTTTAGCTAATTTGTTATA
1153409 TCAAAACCAAAAGCTTAACAATCTCCCCCCTTTTGATATAACAAACCTTAAAAAAATAAATTTGA
66 TCAAAACCAAAAGCTTAACAATCT-CCCCCTTTTGATATAACAAACCTTAAAAAAATAAATTTGA
1153474 TTGACTTTACTCACTTCACATGTTATAAGG
130 TTGACTTTACTCACTTCACATGTTATAAGG
1153504 AATTATTTTATGTTTTTCAAAGTATTCTTTACAAAAGCAAATATATTTTTAGCTAATTTGTTATA
1 AATTATTTTATGTTTTTCAAAGTATTCTTTACAAAAGCAAATATATTTTTAGCTAATTTGTTATA
1153569 TCAAAACCAAAAGCTTAACAATCTCCCCCTTTTGATATAACAAACCTTAAAAAAATAAATTTGAT
66 TCAAAACCAAAAGCTTAACAATCTCCCCCTTTTGATATAACAAACCTTAAAAAAATAAATTTGAT
1153634 TGACTTTACTCACTTCACATGTTATAAGG
131 TGACTTTACTCACTTCACATGTTATAAGG
1153663 AATT
1 AATT
1153667 TCAAAGAAGC
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 74 0.45
160 89 0.55
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (159 bp):
AATTATTTTATGTTTTTCAAAGTATTCTTTACAAAAGCAAATATATTTTTAGCTAATTTGTTATA
TCAAAACCAAAAGCTTAACAATCTCCCCCTTTTGATATAACAAACCTTAAAAAAATAAATTTGAT
TGACTTTACTCACTTCACATGTTATAAGG
Found at i:1154201 original size:2 final size:2
Alignment explanation
Indices: 1154194--1154239 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1154184 TGGATTCTTT
1154194 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1154236 TA TA
1 TA TA
1154240 GATTTTGTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1155216 original size:24 final size:25
Alignment explanation
Indices: 1155160--1155217 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
1155150 TATTTTTAAT
*
1155160 AAATTTTTATTTTATAATATAAAAA
1 AAATATTTATTTTATAATATAAAAA
1155185 AAATATTTATTTT-TAA-ATTAATAAA
1 AAATATTTATTTTATAATA-TAA-AAA
1155210 AAA-ATTTA
1 AAATATTTA
1155218 AAATGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.03
24 11 0.37
25 18 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATATTTATTTTATAATATAAAAA
Found at i:1156518 original size:16 final size:16
Alignment explanation
Indices: 1156497--1156528 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1156487 CCACTATCGT
1156497 AATCAAGAGTGAATGG
1 AATCAAGAGTGAATGG
1156513 AATCAAGAGTGAATGG
1 AATCAAGAGTGAATGG
1156529 CAAGGCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (16 bp):
AATCAAGAGTGAATGG
Found at i:1156758 original size:18 final size:17
Alignment explanation
Indices: 1156724--1156757 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1156714 CAATTTTAGC
1156724 TCCTACCCAATAAAAAA
1 TCCTACCCAATAAAAAA
1156741 TCCTACCCAATAAAAAA
1 TCCTACCCAATAAAAAA
1156758 AAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (17 bp):
TCCTACCCAATAAAAAA
Found at i:1156973 original size:15 final size:13
Alignment explanation
Indices: 1156943--1156981 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1156933 TCAAACCAAT
1156943 TAAAAAAATAAAA
1 TAAAAAAATAAAA
**
1156956 TAAAAAAATAATT
1 TAAAAAAATAAAA
*
1156969 TATAAAAATAAAA
1 TAAAAAAATAAAA
1156982 AAATTAAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:1162449 original size:30 final size:30
Alignment explanation
Indices: 1162384--1162447 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
1162374 TAATTTGTTC
1162384 TTTTTATCTATTTTTCTCATATTTTTAAAT
1 TTTTTATCTATTTTTCTCATATTTTTAAAT
*
1162414 TTTTTAT-TATTTTTCTCCTATTTTTAAAT
1 TTTTTATCTATTTTTCTCATATTTTTAAAT
1162443 TTTTT
1 TTTTT
1162448 TAAGAAGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 26 0.79
30 7 0.21
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTTTATCTATTTTTCTCATATTTTTAAAT
Found at i:1173509 original size:30 final size:30
Alignment explanation
Indices: 1173473--1173532 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
1173463 ATCATGATTC
1173473 TGTGTTTGATGTCCGTATTTTCTATGTAGA
1 TGTGTTTGATGTCCGTATTTTCTATGTAGA
1173503 TGTGTTTGATGTCCGTATTTTCTATGTAGA
1 TGTGTTTGATGTCCGTATTTTCTATGTAGA
1173533 CGACTTAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.10, G:0.23, T:0.50
Consensus pattern (30 bp):
TGTGTTTGATGTCCGTATTTTCTATGTAGA
Found at i:1176807 original size:24 final size:25
Alignment explanation
Indices: 1176765--1176830 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
1176755 AACCCCATAC
* * *
1176765 AAAATTAATACTATCAAAATAAA-T
1 AAAATTAAAAATATAAAAATAAATT
1176789 AAAATTAAAAATATAAAAAATAAATT
1 AAAATTAAAAATAT-AAAAATAAATT
* *
1176815 AAGA-TAAATATATAAA
1 AAAATTAAAAATATAAA
1176831 TATTTCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 15 0.43
25 16 0.46
26 4 0.11
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATTAAAAATATAAAAATAAATT
Found at i:1176822 original size:25 final size:25
Alignment explanation
Indices: 1176780--1176830 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
1176770 TAATACTATC
1176780 AAAATAAATAAAATTAAAAATATAA
1 AAAATAAATAAAATTAAAAATATAA
* *
1176805 AAAATAAATTAAGA-TAAATATATAA
1 AAAATAAA-TAAAATTAAAAATATAA
1176830 A
1 A
1176831 TATTTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAATAAATAAAATTAAAAATATAA
Found at i:1177127 original size:17 final size:16
Alignment explanation
Indices: 1177107--1177178 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 16
1177097 TCAATAATAA
1177107 AAAATATAATATAAAAT
1 AAAATAT-ATATAAAAT
*
1177124 AAAATATGATAAAAAAT
1 AAAATAT-ATATAAAAT
1177141 AAAA-ATATATAAATAT
1 AAAATATATATAAA-AT
*
1177157 ATCAAATTTATATATAAAT
1 A--AAATATATATA-AAAT
1177176 AAA
1 AAA
1177179 TATTAATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
15 6 0.13
16 5 0.11
17 21 0.46
18 3 0.07
19 9 0.20
20 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (16 bp):
AAAATATATATAAAAT
Found at i:1178650 original size:24 final size:24
Alignment explanation
Indices: 1178621--1178688 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
1178611 ATTGTTATTT
1178621 TAAAATAATAATAATTATTACATA
1 TAAAATAATAATAATTATTACATA
1178645 TAAAATAATAATAATTATTACATA
1 TAAAATAATAATAATTATTACATA
1178669 TAAAATAATAATAATATATT
1 TAAAATAATAATAAT-TATT
1178689 TACACATCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 39 0.91
25 4 0.09
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAATAATAATAATTATTACATA
Found at i:1178993 original size:20 final size:20
Alignment explanation
Indices: 1178968--1179007 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1178958 TTGCGAATAA
1178968 GTATTTTGTGATTTTATTTT
1 GTATTTTGTGATTTTATTTT
* *
1178988 GTATTTTTTGTTTTTATTTT
1 GTATTTTGTGATTTTATTTT
1179008 TTTAATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (20 bp):
GTATTTTGTGATTTTATTTT
Found at i:1179153 original size:24 final size:25
Alignment explanation
Indices: 1179101--1179152 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1179091 ACGATATGTC
1179101 AAATCTAAAGACTAAAATTTTTTAA
1 AAATCTAAAGACTAAAATTTTTTAA
1179126 AAATCTAAAGACTAAAATTTTTTAA
1 AAATCTAAAGACTAAAATTTTTTAA
1179151 AA
1 AA
1179153 TGTATTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (25 bp):
AAATCTAAAGACTAAAATTTTTTAA
Found at i:1179250 original size:12 final size:12
Alignment explanation
Indices: 1179233--1179257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1179223 TATATTTATA
1179233 TACTTTACATTG
1 TACTTTACATTG
1179245 TACTTTACATTG
1 TACTTTACATTG
1179257 T
1 T
1179258 CTATTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TACTTTACATTG
Found at i:1180543 original size:12 final size:13
Alignment explanation
Indices: 1180491--1180549 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 13
1180481 AAGTTAGGTA
1180491 AAAAAAGAAAGAAG
1 AAAAAAGAAA-AAG
* * * *
1180505 GAAGATGAAGAAG
1 AAAAAAGAAAAAG
1180518 AAAGAAAGAAAAAG
1 AAA-AAAGAAAAAG
1180532 AAAAAA-AAAAAG
1 AAAAAAGAAAAAG
1180544 AAAAAA
1 AAAAAA
1180550 TATGAAATGG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 12 0.33
13 8 0.22
14 16 0.44
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:1180927 original size:12 final size:12
Alignment explanation
Indices: 1180912--1180938 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1180902 TTATTTTATT
1180912 TATATGTATATA
1 TATATGTATATA
1180924 TATATGTATATA
1 TATATGTATATA
1180936 TAT
1 TAT
1180939 TTTGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATATGTATATA
Found at i:1187022 original size:36 final size:35
Alignment explanation
Indices: 1186942--1187022 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
1186932 CAAAATGACA
* *
1186942 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
1186977 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
1187012 AACAACAAAAA
1 AA-AACAAAAA
1187023 TAAAAAAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:1188395 original size:27 final size:27
Alignment explanation
Indices: 1188352--1189142 Score: 1161
Period size: 27 Copynumber: 28.9 Consensus size: 27
1188342 GTGGCATTTT
* *
1188352 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1188380 CTTTTAAGTCCACAACTCTGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1188407 CTTTTAAGTCCACAACTCCGTGGTACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1188434 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1188461 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1188489 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1188516 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1188543 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1188570 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
1188597 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1188625 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1188652 CTTTTAAGTCCACAACTCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1188680 CTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACC
1188707 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1188734 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1188761 CTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1188789 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1188816 CTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1188843 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1188870 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1188898 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1188925 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1188953 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1188980 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1189008 CTTTTAAGTCCACAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1189036 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1189063 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1189090 CTTTTAAGTCCACAACTCAGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
1189118 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
1189143 ACCCATTCCA
Statistics
Matches: 698, Mismatches: 55, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
27 471 0.67
28 227 0.33
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1188499 original size:82 final size:81
Alignment explanation
Indices: 1188352--1189142 Score: 1161
Period size: 82 Copynumber: 9.6 Consensus size: 81
1188342 GTGGCATTTT
* * * *
1188352 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1188417 CACAACTCCGTGGTACC
65 CACAACTCCGTGGCACC
* * * *
1188434 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1188499 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
1188516 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1188581 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
** *
1188597 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
1188662 CACAACTCTGTGGCATTC
65 CACAACTCCGTGGCA-CC
1188680 CTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1188744 CACAACTCCGTGGCACT
65 CACAACTCCGTGGCACC
* * *
1188761 CTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1188826 CACAACTCCGTAGCACC
65 CACAACTCCGTGGCACC
* * **
1188843 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1188908 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
1188925 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1188990 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
*
1189008 CTTTTAAGTCCACAACTCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1189073 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * * *
1189090 CTTTTAAGTCCACAACTCAGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA
1189143 ACCCATTCCA
Statistics
Matches: 647, Mismatches: 52, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
81 140 0.22
82 381 0.59
83 126 0.19
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:1188544 original size:109 final size:110
Alignment explanation
Indices: 1188328--1189142 Score: 1180
Period size: 109 Copynumber: 7.4 Consensus size: 110
1188318 GACCTTTTCA
* * ** * *
1188328 AAGTCCACGACTCAGTGGCATTTTCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCAC
1 AAGTCCACAACTCCGTGGCA-TCCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCAC
* * *
1188393 AACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGTACCCTTTT
65 AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * *
1188439 AAGTCCACAACTCTGTGGCA-CCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* *
1188503 ACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
66 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
1188548 AAGTCCACAACTCCGTGACA-CCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
** *
1188611 ACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
66 ACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
1188657 AAGTCCACAACTCTGTGGCATTCCTTTT-AA-TACCACAACTCCGTGGCACCCTTTTAAGTCCAC
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAAGT-CCACAACTCCGTGGCACCCTTTTAAGTCCAC
*
1188720 AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
65 AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * *
1188766 AAGTCCATAACTCCATGGCATCCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGACCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
*
1188830 ACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
66 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * * *
1188875 AAGTCCATAACTCTGTGGCAT-CTTTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCAC
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCAC
* *
1188939 AACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTT
65 AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
1188985 AAGTCCACAACTCCGTGGCATCCCTTTT-AAGTCCACAACTCCATGGCATCCCTTTTAAGTCCAC
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCAC
1189049 AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
65 AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * *
1189095 AAGTCCACAACTCAGTGGCATCCCTTTTAAA-TTCACAAATCGGTGGCA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAAGTCCACAACTCCGTGGCA
1189143 ACCCATTCCA
Statistics
Matches: 641, Mismatches: 54, Indels: 19
0.90 0.08 0.03
Matches are distributed among these distances:
108 48 0.07
109 332 0.52
110 229 0.36
111 32 0.05
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (110 bp):
AAGTCCACAACTCCGTGGCATCCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1189132 original size:55 final size:55
Alignment explanation
Indices: 1188328--1189142 Score: 1171
Period size: 55 Copynumber: 14.9 Consensus size: 55
1188318 GACCTTTTCA
* * ** * *
1188328 AAGTCCACGACTCAGTGGCATTTTCTTTTAAAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT
* *
1188385 AAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGTACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * *
1188439 AAGTCCACAACTCTGTGGCA-CCCTTTTAAAATCCACAACTCCGTGGTACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT
* * *
1188494 TAGTCCACAACTCTGTGGCA-CCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
1188548 AAGTCCACAACTCCGTGACA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
** *
1188602 AAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
1188657 AAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTT
*
1188712 AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
1188766 AAGTCCATAACTCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
1188821 AAGACCACAACTCCGTAGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * ** *
1188875 AAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
1188930 AAAGTCCACAACTCCGTGGCA-CCCTTTTTAGTCCACAACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
1188985 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCATGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTT
1189041 AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * * *
1189095 AAGTCCACAACTCAGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA
1189143 ACCCATTCCA
Statistics
Matches: 696, Mismatches: 51, Indels: 24
0.90 0.07 0.03
Matches are distributed among these distances:
54 286 0.41
55 346 0.50
56 46 0.07
57 18 0.03
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (55 bp):
AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1189170 original size:32 final size:32
Alignment explanation
Indices: 1189128--1189538 Score: 662
Period size: 32 Copynumber: 12.8 Consensus size: 32
1189118 CTTTTAAATT
* *
1189128 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1189160 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1189192 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1189224 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1189256 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1189288 TACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1189320 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1189352 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
1189384 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
1189416 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
1189448 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1189480 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
1189512 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
1189539 TCACCATTTT
Statistics
Matches: 356, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
31 3 0.01
32 350 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1190812 original size:10 final size:10
Alignment explanation
Indices: 1190773--1190825 Score: 52
Period size: 10 Copynumber: 4.9 Consensus size: 10
1190763 AGTTAGGTAA
1190773 AAAAAGAAAG
1 AAAAAGAAAG
*
1190783 AAGGAAGATGAAG
1 AA-AAAGA--AAG
1190796 AAGAAAGAAAG
1 AA-AAAGAAAG
*
1190807 AAAAAGAAAA
1 AAAAAGAAAG
1190817 AAAAAGAAA
1 AAAAAGAAA
1190826 AAATATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 18 0.49
11 9 0.24
13 10 0.27
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:1190822 original size:20 final size:23
Alignment explanation
Indices: 1190771--1190825 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 23
1190761 AAAGTTAGGT
1190771 AAAAAAAGAAAGAAGGAAGATGAA
1 AAAAAAAGAAAGAA-GAAGATGAA
* *
1190795 GAAGAAAGAAAGAA-AA-A-GAA
1 AAAAAAAGAAAGAAGAAGATGAA
1190815 AAAAAAAGAAA
1 AAAAAAAGAAA
1190826 AAATATGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 12 0.44
21 1 0.04
22 2 0.07
24 12 0.44
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (23 bp):
AAAAAAAGAAAGAAGAAGATGAA
Found at i:1190824 original size:16 final size:17
Alignment explanation
Indices: 1190793--1190827 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1190783 AAGGAAGATG
*
1190793 AAGAAGAAAGAAAGAAA
1 AAGAAGAAAAAAAGAAA
1190810 AAGAA-AAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
1190826 AA
1 AA
1190828 ATATGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAAGAAA
Found at i:1191210 original size:14 final size:14
Alignment explanation
Indices: 1191191--1191219 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1191181 TTATTTTATT
1191191 TATATGTATATATA
1 TATATGTATATATA
1191205 TATATGTATATATA
1 TATATGTATATATA
1191219 T
1 T
1191220 TTTGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TATATGTATATATA
Found at i:1193588 original size:28 final size:27
Alignment explanation
Indices: 1193556--1193619 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
1193546 AATTATATAT
**
1193556 TTAATAATTAAAACATATTTTATTTAAA
1 TTAATAATTAAAACATATAATATTT-AA
* *
1193584 TTAATTATTAAAATATATAATATTTAA
1 TTAATAATTAAAACATATAATATTTAA
1193611 TTATATAAT
1 TTA-ATAAT
1193620 AATTTATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAATAATTAAAACATATAATATTTAA
Found at i:1194045 original size:1 final size:1
Alignment explanation
Indices: 1194039--1194099 Score: 122
Period size: 1 Copynumber: 61.0 Consensus size: 1
1194029 TACAATAATA
1194039 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1194100 CATAGGACAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1336022 original size:13 final size:13
Alignment explanation
Indices: 1336004--1336029 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1335994 CATTTTGGGA
1336004 TGTATCGATACAT
1 TGTATCGATACAT
1336017 TGTATCGATACAT
1 TGTATCGATACAT
1336030 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1336026 original size:33 final size:32
Alignment explanation
Indices: 1335984--1336047 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1335974 TACAAGCCAA
*
1335984 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
1336017 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
1336048 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:1336136 original size:20 final size:21
Alignment explanation
Indices: 1336089--1336141 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1336079 ACCAATCACC
*
1336089 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
1336110 AGTATCGATACATT-TAGT-CA
1 TGTATCGATACATTCT-GTACA
1336130 TGTATCGATACA
1 TGTATCGATACA
1336142 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:1336147 original size:13 final size:13
Alignment explanation
Indices: 1336129--1336153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1336119 ACATTTAGTC
1336129 ATGTATCGATACA
1 ATGTATCGATACA
1336142 ATGTATCGATAC
1 ATGTATCGATAC
1336154 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:1336186 original size:20 final size:19
Alignment explanation
Indices: 1336163--1336201 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1336153 CTGTGCATTA
1336163 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1336183 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1336202 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:1337200 original size:19 final size:18
Alignment explanation
Indices: 1337178--1337233 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
1337168 AAATGTATTA
1337178 ATACATAAGTGTTGTATCG
1 ATACATAAGT-TTGTATCG
1337197 ATAC--AA---TGTATCG
1 ATACATAAGTTTGTATCG
1337210 ATACATAAGTTTTGTATCG
1 ATACATAAG-TTTGTATCG
1337229 ATACA
1 ATACA
1337234 ATGTATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
13 11 0.35
15 2 0.06
17 2 0.06
19 16 0.52
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (18 bp):
ATACATAAGTTTGTATCG
Found at i:1337208 original size:13 final size:13
Alignment explanation
Indices: 1337190--1337214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1337180 ACATAAGTGT
1337190 TGTATCGATACAA
1 TGTATCGATACAA
1337203 TGTATCGATACA
1 TGTATCGATACA
1337215 TAAGTTTTGT
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:1337214 original size:32 final size:32
Alignment explanation
Indices: 1337169--1337241 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
1337159 ACAAACAGAA
*
1337169 AATGTATTAATACATAAGTGTTGTATCGATAC
1 AATGTATCAATACATAAGTGTTGTATCGATAC
* *
1337201 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCAATACATAAGTGTTGTATCGATAC
1337233 AATGTATCA
1 AATGTATCA
1337242 CTATGAAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (32 bp):
AATGTATCAATACATAAGTGTTGTATCGATAC
Found at i:1337284 original size:21 final size:21
Alignment explanation
Indices: 1337258--1337299 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1337248 AGCTACTACC
1337258 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1337279 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1337300 GTATTGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:1337313 original size:21 final size:21
Alignment explanation
Indices: 1337289--1337333 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1337279 AAGGAAATGT
**
1337289 ATCGATACATTGTATTGATAC
1 ATCGATACATTGTATCAATAC
* *
1337310 ATCGATTCTTTGTATCAATAC
1 ATCGATACATTGTATCAATAC
1337331 ATC
1 ATC
1337334 TAGGAAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (21 bp):
ATCGATACATTGTATCAATAC
Found at i:1339725 original size:51 final size:51
Alignment explanation
Indices: 1339663--1339849 Score: 207
Period size: 51 Copynumber: 3.6 Consensus size: 51
1339653 TAAGTTTCTC
* *
1339663 AATTTTGCACAATCAGGGATACTCCAACCCTGGTTTTATTTCTAAAACACT
1 AATTTTCCACAATCAGGGATACTCCAACCCTGATTTTATTTCTAAAACACT
* * *
1339714 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTT-TCAAAACACC
1 AATTTTCCACAATCAGGGATACTCCAACCCTGATTTTATTTCT-AAAACACT
** * * *
1339765 AATTTTCCTTTAATCGGGGATGCTCCAACTCC-GATTTTATTTCCAAAAACACT
1 AATTTTCC-ACAATCAGGGATACTCCAAC-CCTGATTTTATTT-CTAAAACACT
* * *
1339818 AATTTTTCATAATCAAGGATACTCCAACCCTG
1 AATTTTCCACAATCAGGGATACTCCAACCCTG
1339850 TTAATCATCG
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
50 1 0.01
51 54 0.47
52 44 0.38
53 16 0.14
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
AATTTTCCACAATCAGGGATACTCCAACCCTGATTTTATTTCTAAAACACT
Found at i:1339800 original size:52 final size:51
Alignment explanation
Indices: 1339663--1339847 Score: 203
Period size: 52 Copynumber: 3.6 Consensus size: 51
1339653 TAAGTTTCTC
* * * *
1339663 AATTTTGCACAATCAGGGATACTCCAACCCTGGTTTTA-TTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAAACACT
*
1339714 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACC
1 AATTTTCCACAATCGGGGATACTCCAA-CCCGATTTTATTTTCAAAAACACT
** * *
1339765 AATTTTCCTTTAATCGGGGATGCTCCAACTCCGATTTTATTTCCAAAAACACT
1 AATTTTCC-ACAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAAACACT
* * **
1339818 AATTTTTCATAATCAAGGATACTCCAACCC
1 AATTTTCCACAATCGGGGATACTCCAACCC
1339848 TGTTAATCAT
Statistics
Matches: 115, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
51 49 0.43
52 52 0.45
53 14 0.12
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (51 bp):
AATTTTCCACAATCGGGGATACTCCAACCCGATTTTATTTTCAAAAACACT
Found at i:1339939 original size:76 final size:76
Alignment explanation
Indices: 1339854--1340262 Score: 536
Period size: 76 Copynumber: 5.3 Consensus size: 76
1339844 ACCCTGTTAA
** *
1339854 TCATCGGGGATACTCCAACCCCGTTATTTTTGAAGGGACACTCCAACCCCGGTTTTATTTCTAAA
1 TCATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAA
1339919 ACATCAATTTT
66 ACATCAATTTT
*
1339930 TCATCGGGGATACTCCAACCCCGTTATTTCCGAAAGGATACTCCAACCCCGGTTTTATTTCTAAA
1 TCATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAA
* *
1339995 ATAT-TATTTT
66 ACATCAATTTT
* * * *
1340005 CTCATAATCAGGGATACTCCAACCCCGTTACTTCCG-AGAGGATACTCCAATCCCGATTTTATTT
1 -TC---ATCGGGGATACTCCAACCCCGTTATTTCCGAAG-GGATACTCCAACCCCGGTTTTATTT
1340069 CTAAAACATCAATTTT
61 CTAAAACATCAATTTT
*
1340085 TCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAA
1 TCATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAA
* *
1340150 ATATTAATTTCT
66 ACATCAATTT-T
* * * * *
1340162 CATAATCGGGGATACTCCAACCCCGTTACTTT-CGAGGGGATACTCTAATCCCGATTTTATTTCT
1 --TCATCGGGGATACTCCAACCCCGTTA-TTTCCGAAGGGATACTCCAACCCCGGTTTTATTTCT
*
1340226 AAAACATTAATTTT
63 AAAACATCAATTTT
*
1340240 TCACCGGGGATACTCCAACCCCG
1 TCATCGGGGATACTCCAACCCCG
1340263 GCTTTATTTC
Statistics
Matches: 295, Mismatches: 27, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
75 5 0.02
76 151 0.51
77 2 0.01
78 2 0.01
79 127 0.43
80 8 0.03
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (76 bp):
TCATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAA
ACATCAATTTT
Found at i:1340031 original size:155 final size:155
Alignment explanation
Indices: 1339860--1340262 Score: 664
Period size: 155 Copynumber: 2.6 Consensus size: 155
1339850 TTAATCATCG
* * * * *
1339860 GGGATACTCCAACCCCGTTATTTTTGAAGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCA
1 GGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAATCCCGATTTTATTTCTAAAACATCA
1339925 ATTTTTCATCGGGGATACTCCAACCCCGTTATTTCCGAAAGGATACTCCAACCCCGGTTTTATTT
66 ATTTTTCATCGGGGATACTCCAACCCCGTTATTTCCGAAAGGATACTCCAACCCCGGTTTTATTT
*
1339990 CTAAAATATTATTTTCTCATAATCA
131 CTAAAATATTAATTTCTCATAATCA
*
1340015 GGGATACTCCAACCCCGTTACTTCCG-AGAGGATACTCCAATCCCGATTTTATTTCTAAAACATC
1 GGGATACTCCAACCCCGTTACTTTCGAAG-GGATACTCCAATCCCGATTTTATTTCTAAAACATC
**
1340079 AATTTTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATT
65 AATTTTTCATCGGGGATACTCCAACCCCGTTATTTCCGAAAGGATACTCCAACCCCGGTTTTATT
*
1340144 TCTAAAATATTAATTTCTCATAATCG
130 TCTAAAATATTAATTTCTCATAATCA
* * *
1340170 GGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCTAATCCCGATTTTATTTCTAAAACATTA
1 GGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAATCCCGATTTTATTTCTAAAACATCA
*
1340235 ATTTTTCACCGGGGATACTCCAACCCCG
66 ATTTTTCATCGGGGATACTCCAACCCCG
1340263 GCTTTATTTC
Statistics
Matches: 231, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
154 2 0.01
155 228 0.99
156 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (155 bp):
GGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAATCCCGATTTTATTTCTAAAACATCA
ATTTTTCATCGGGGATACTCCAACCCCGTTATTTCCGAAAGGATACTCCAACCCCGGTTTTATTT
CTAAAATATTAATTTCTCATAATCA
Found at i:1340253 original size:48 final size:48
Alignment explanation
Indices: 1340197--1340363 Score: 127
Period size: 51 Copynumber: 3.4 Consensus size: 48
1340187 TTACTTTCGA
* * * * *
1340197 GGGGATACTCTAATCCCGATTTTATTTCTAAAACATTAATTTTTCACC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTCTCACC
* * *
1340245 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTCTCAC---C
* * * * * * ** *
1340296 AGGGATACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCATAATC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTCTC---ACC
1340347 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1340364 ATTATTTTCA
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
48 39 0.40
51 57 0.59
54 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (48 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTCTCACC
Found at i:1340304 original size:51 final size:51
Alignment explanation
Indices: 1340246--1340363 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
1340236 TTTTTCACCG
* *
1340246 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCA
1 GGGATACTCCAACCCCGGCCTTATTTCCAAAATATCGATTTCTCACAATCA
* * * *
1340297 GGGATACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCATAATCG
1 GGGATACTCCAACCCCGGCCTTATTTCCAAAATATCGATTTCTCACAATCA
1340348 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
1340364 ATTATTTTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGCCTTATTTCCAAAATATCGATTTCTCACAATCA
Found at i:1340426 original size:79 final size:79
Alignment explanation
Indices: 1340295--1340442 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
1340285 TTCTCACAAT
* * * *
1340295 CAGGGATACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCATAATCGGGGATACTCCAA
1 CAGGGATACTCCAACCCCGACCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAA
1340360 CCCCATTATTTTCA
66 CCCCATTATTTTCA
** *
1340374 CAGGGATACTCCAACCCCGATTTTATTTTTAAAACATCAACTTTCT-ATAATCGGGGATACTCCA
1 CAGGGATACTCCAACCCCGACCTTATTTCTAAAACATCAA-TTTCTCATAATCGGGGATACTCCA
1340438 ACCCC
65 ACCCC
1340443 GTTACTATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 56 0.92
80 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (79 bp):
CAGGGATACTCCAACCCCGACCTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAA
CCCCATTATTTTCA
Found at i:1352848 original size:6 final size:6
Alignment explanation
Indices: 1352834--1352904 Score: 71
Period size: 6 Copynumber: 12.5 Consensus size: 6
1352824 CTTCTCTTCT
* *
1352834 AAAAA- AAAAAC AAAAAC AAAAAC AAAAGC AAAATAA AAAAAC AAAAA-
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA-AC AAAAAC AAAAAC
*
1352881 AACAA- AAAAAC -AAAAC -AAAAC AAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAA
1352905 GAAAAAGAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
5 23 0.41
6 29 0.52
7 4 0.07
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.01
Consensus pattern (6 bp):
AAAAAC
Found at i:1352871 original size:16 final size:14
Alignment explanation
Indices: 1352836--1352910 Score: 70
Period size: 13 Copynumber: 5.6 Consensus size: 14
1352826 TCTCTTCTAA
1352836 AAAAAAAAC-AAA-
1 AAAAAAAACAAAAC
*
1352848 AACAAAAACAAAAGC
1 AAAAAAAACAAAA-C
*
1352863 AAAATAAA-AAAAC
1 AAAAAAAACAAAAC
1352876 -AAAAAAACAAAA-
1 AAAAAAAACAAAAC
*
1352888 AAACAAAACAAAAC
1 AAAAAAAACAAAAC
1352902 AAAGAAAAA
1 AAA-AAAAA
1352911 GAGAGAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
12 14 0.28
13 19 0.38
14 7 0.14
15 10 0.20
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:1354048 original size:94 final size:97
Alignment explanation
Indices: 1353884--1354062 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 97
1353874 CCTTCCACTT
*
1353884 TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTCC---TAAAGCCCACACAAGTTGGTGGCACTTCCCA
1353949 GTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCC
63 GTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCC
* **
1353984 TTTAGTCCTCAAAGAGCAGGATGCC-TTT-C-AAAGCCCACACAAGTTGGTGGCGCCTT-TTAGT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTAAAGCCCACACAAGTTGGTGGC-ACTTCCCAGT
1354045 CCTCAAAGAGCAGGACGC
65 CCTCAAAGAGCAGGACGC
1354063 CTTTCAAAGC
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
94 43 0.58
95 3 0.04
98 1 0.01
99 3 0.04
100 24 0.32
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (97 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
CTCAAAGAGCAGGACGCTCTCTCCTTTCGCCC
Found at i:1354149 original size:60 final size:55
Alignment explanation
Indices: 1353984--1354175 Score: 233
Period size: 55 Copynumber: 3.4 Consensus size: 55
1353974 CCTTTCGCCC
* *
1353984 TTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCGCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
*
1354039 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * * *
1354094 TTTAGTCCTCAAAGAGCAGATACCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA-CT
1 TTTAGTCCTCAAAGAGCAG-GA-C---GCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
** *
1354153 TCCCAGTCCTCAAAGAGTAGGAC
1 T-TTAGTCCTCAAAGAGCAGGAC
1354176 ACTCCCTTCT
Statistics
Matches: 119, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
55 71 0.60
56 1 0.01
57 1 0.01
58 1 0.01
59 4 0.03
60 41 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
Found at i:1354229 original size:154 final size:155
Alignment explanation
Indices: 1354034--1354324 Score: 476
Period size: 154 Copynumber: 1.9 Consensus size: 155
1354024 AAGTTGGTGG
* *
1354034 CGCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAG
1 CGCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCCGGTGGCACCTTTTAA
* * *
1354099 TCCTCAAAGAGCA-GATACCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCCCAGTCCT
66 TCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
1354163 CAAAGAGTAGGACACTCCCTTCTTT
131 CAAAGAGTAGGACACTCCCTTCTTT
* * *
1354188 CGCCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCCGGTGGCACCTTTTAA
1 CGCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCCGGTGGCACCTTTTAA
* * *
1354253 TTCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCT
66 TCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
1354318 CAAAGAG
131 CAAAGAG
1354325 CATGACGCCT
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
154 72 0.58
155 53 0.42
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (155 bp):
CGCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCCGGTGGCACCTTTTAA
TCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
CAAAGAGTAGGACACTCCCTTCTTT
Found at i:1354267 original size:209 final size:212
Alignment explanation
Indices: 1353883--1354385 Score: 668
Period size: 209 Copynumber: 2.4 Consensus size: 212
1353873 TCCTTCCACT
* *
1353883 TTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 TTTTAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
* *
1353948 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTC
66 AGTCCTCAAAGAGCAGGACACTCCCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTC
** * *
1354013 AAAGCCCACACAAGTTGGTGGCGCCTTTTAGTCCTCAAAGAGCAGGACGCCTT-T-C-AAAGCCC
131 AAAGCCCACACAAGCCGGTGGCACCTTTTAATCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCC
1354075 ACACAAGCTGGTGGCACC
196 ACACAAGCTGGTGGCA-C
*
1354093 TTTTAGTCCTCAAAGAGCA-GATACCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCCC
1 TTTTAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
* * * * *
1354157 AGTCCTCAAAGAGTAGGACACTCCCTTCTTTCGCCTTTTTGTCCTCAAAGAGCAGGATGCCTTTT
66 AGTCCTCAAAGAGCAGGACACTCCCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTC
*
1354222 AAAGCCCACACAAGCCGGTGGCACCTTTTAATTCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAG
131 AAAGCCCACACAAGCCGGTGGCACCTTTTAATCCTCAAAGAGCAGGACGCCTTCTCC---TAAAG
*
1354287 CCCACACAAGTTGGTGGCAC
193 CCCACACAAGCTGGTGGCAC
* * * * *
1354307 TTCCTAGTCCTCAAAGAGCATG--A-C---GCCTTTCAAAGCCCACACGAGTTGGTGGCACCTT-
1 TT-TTAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
**
1354365 TTAGTCCTCAAAGAGCAGGAC
64 CCAGTCCTCAAAGAGCAGGAC
1354386 GCCTTTTAAA
Statistics
Matches: 260, Mismatches: 24, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
209 149 0.57
210 63 0.24
211 4 0.02
213 1 0.00
214 4 0.02
215 38 0.15
216 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (212 bp):
TTTTAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
AGTCCTCAAAGAGCAGGACACTCCCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTC
AAAGCCCACACAAGCCGGTGGCACCTTTTAATCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCC
ACACAAGCTGGTGGCAC
Found at i:1354274 original size:55 final size:55
Alignment explanation
Indices: 1354197--1354442 Score: 332
Period size: 55 Copynumber: 4.4 Consensus size: 55
1354187 TCGCCTTTTT
* ** *
1354197 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCCGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
* *
1354252 ATTCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTA
1 GTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTA
* * * *
1354313 GTCCTCAAAGAGCATGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
1354368 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
1354423 GTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
1354443 TCTCTCTTTT
Statistics
Matches: 167, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
55 116 0.69
56 3 0.02
60 3 0.02
61 45 0.27
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (55 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
Found at i:1354454 original size:116 final size:112
Alignment explanation
Indices: 1354197--1354442 Score: 347
Period size: 116 Copynumber: 2.2 Consensus size: 112
1354187 TCGCCTTTTT
* *
1354197 GTCCTCAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGCCGGTGGCACCTTTTAATTCTCAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGCCGGTGGCACCTTTTAATCCTCAAA
1354261 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTA
66 GAGCAGGACG----C-CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTA
* * ** *
1354313 GTCCTCAAAGAGCATGACGCC-TTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGCCGGTGGCACCTTTTAATCCTCAAA
1354377 GAGCAGGACG-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTA
66 GAGCAGGACGCCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTA
1354423 GTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
1354443 TCTCTCTTTT
Statistics
Matches: 120, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
110 51 0.43
111 3 0.03
115 3 0.03
116 63 0.52
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (112 bp):
GTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGCCGGTGGCACCTTTTAATCCTCAAA
GAGCAGGACGCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTA
Found at i:1354673 original size:43 final size:42
Alignment explanation
Indices: 1354579--1354758 Score: 177
Period size: 42 Copynumber: 4.1 Consensus size: 42
1354569 GCACTTTGTA
*
1354579 GTCCTCAAAGAGCAGGACTCACTTTATTTTCCTCTTTCT--TTT
1 GTCCTCAAAGAGCAGGACGCA-TTTATTTTCCT-TTTCTCCTTT
* *
1354621 GTCCTCAAAGAACAGGACGCATTTCGTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTT-ATTTTCCTTTTCTCCTTT
* *
1354664 GTCCTCAAAGAGCAGGACGCTCTTTA-TTTCCTTCTTTTCCCTTCT
1 GTCCTCAAAGAGCAGGACGC-ATTTATTTTCCTT-TTCT-CCTT-T
* * *
1354709 AGTCCTCAAAGAGTAGGACACATTTCATTTTCCTTTTTTCCTTT
1 -GTCCTCAAAGAGCAGGACGCATTT-ATTTTCCTTTTCTCCTTT
*
1354753 TTCCTC
1 GTCCTC
1354759 GAAAAATGGG
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
41 8 0.07
42 33 0.28
43 30 0.26
44 8 0.07
45 8 0.07
46 23 0.20
47 7 0.06
ACGTcount: A:0.18, C:0.28, G:0.12, T:0.42
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCATTTATTTTCCTTTTCTCCTTT
Found at i:1354744 original size:89 final size:85
Alignment explanation
Indices: 1354579--1354758 Score: 227
Period size: 89 Copynumber: 2.1 Consensus size: 85
1354569 GCACTTTGTA
* * *
1354579 GTCCTCAAAGAGCAGGACTCACTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAACAGGACGCATT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTAGTCCTCAAAGAACAGGACACATT
*
1354644 TCGTTTTCCTTTTCTCCTTT
66 TCATTTTCCTTTTCTCCTTT
* **
1354664 GTCCTCAAAGAGCAGGACGCTCTTTA-TTTCCTTCTTTTCCCTTCTAGTCCTCAAAGAGTAGGAC
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCC-TC-TTT--CTT-TAGTCCTCAAAGAACAGGAC
*
1354728 ACATTTCATTTTCCTTTTTTCCTTT
61 ACATTTCATTTTCCTTTTCTCCTTT
*
1354753 TTCCTC
1 GTCCTC
1354759 GAAAAATGGG
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
84 5 0.06
85 26 0.32
86 3 0.04
88 3 0.04
89 44 0.54
ACGTcount: A:0.18, C:0.28, G:0.12, T:0.42
Consensus pattern (85 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTAGTCCTCAAAGAACAGGACACATT
TCATTTTCCTTTTCTCCTTT
Found at i:1354748 original size:46 final size:44
Alignment explanation
Indices: 1354579--1354758 Score: 176
Period size: 43 Copynumber: 4.1 Consensus size: 44
1354569 GCACTTTGTA
* * *
1354579 GTCCTCAAAGAGCAGGACTCACTTT-ATTTTCC-TCTTT-CTTTT
1 GTCCTCAAAGAGCAGGACGCA-TTTCATTTTCCTTTTTTCCCTTT
* * *
1354621 GTCCTCAAAGAACAGGACGCATTTCGTTTTCCTTTTCT-CCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTTTCCCTTT
*
1354664 GTCCTCAAAGAGCAGGACGC-TCTTTA-TTTCCTTCTTTTCCCTTCT
1 GTCCTCAAAGAGCAGGACGCAT-TTCATTTTCCTT-TTTTCCCTT-T
* *
1354709 AGTCCTCAAAGAGTAGGACACATTTCATTTTCCTTTTTT-CCTTT
1 -GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTTTCCCTTT
*
1354753 TTCCTC
1 GTCCTC
1354759 GAAAAATGGG
Statistics
Matches: 115, Mismatches: 14, Indels: 17
0.79 0.10 0.12
Matches are distributed among these distances:
41 3 0.03
42 33 0.29
43 36 0.31
44 5 0.04
45 5 0.04
46 25 0.22
47 8 0.07
ACGTcount: A:0.18, C:0.28, G:0.12, T:0.42
Consensus pattern (44 bp):
GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTTTCCCTTT
Found at i:1354876 original size:40 final size:42
Alignment explanation
Indices: 1354778--1354877 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
1354768 GACGTACTTT
* *
1354778 TTTTCACTTTGTCATCAAGAAGCAAGACACTTTCCTTTCCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCATTCCTTC
* * * *
1354821 TCTTCCTTCGTCCTCAAGGAGCAAGAC-CTATTTCATT-C-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCATTCCTTC
1354861 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
1354878 AAAGTGGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 17 0.35
41 3 0.06
42 24 0.50
43 4 0.08
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCATTCCTTC
Found at i:1355555 original size:19 final size:18
Alignment explanation
Indices: 1355531--1355593 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1355521 AAACAGAAAA
1355531 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
*
1355550 TGTATCAATAC--AA---
1 TGTATCGATACATAAGTT
1355563 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1355582 TGTATCGATACA
1 TGTATCGATACA
1355594 ATGTATTGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1355570 original size:32 final size:32
Alignment explanation
Indices: 1355529--1355599 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1355519 ATAAACAGAA
1355529 AATGTATCGATACATAAGTGTTGTATCAATAC
1 AATGTATCGATACATAAGTGTTGTATCAATAC
* *
1355561 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCAATAC
1355593 AATGTAT
1 AATGTAT
1355600 TGCTACGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCAATAC
Found at i:1355643 original size:21 final size:21
Alignment explanation
Indices: 1355617--1355659 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1355607 AAGCTACTAC
1355617 TAAGGAAATGTATCGATACAT
1 TAAGGAAATGTATCGATACAT
1355638 TAAGGAAATGTATCGATACAT
1 TAAGGAAATGTATCGATACAT
1355659 T
1 T
1355660 GTATCGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (21 bp):
TAAGGAAATGTATCGATACAT
Found at i:1355664 original size:13 final size:13
Alignment explanation
Indices: 1355646--1355671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1355636 ATTAAGGAAA
1355646 TGTATCGATACAT
1 TGTATCGATACAT
1355659 TGTATCGATACAT
1 TGTATCGATACAT
1355672 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1358055 original size:51 final size:51
Alignment explanation
Indices: 1358000--1358186 Score: 214
Period size: 51 Copynumber: 3.6 Consensus size: 51
1357990 TAAGTTTCTC
* *
1358000 AATTTTGCACAATCGGGGATACTCTAACCCCGATTTTATTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
* * * *
1358051 AATTTTCCACAATCGGGAATACTCCAACCTCGGTTTTATTT-TCAAAACACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACT
** * * * *
1358102 AATTTTCCTTTAATCGGGGATGCTCCAACTCCGATTTTATTTCCAAAAATACT
1 AATTTTCC-ACAATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACACT
* *
1358155 AATTTTTCACAATCGAGGATACTCCAACCCCG
1 AATTTTCCACAATCGGGGATACTCCAACCCCG
1358187 TTAATCATCG
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 1 0.01
51 51 0.46
52 45 0.41
53 13 0.12
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
Found at i:1358276 original size:76 final size:76
Alignment explanation
Indices: 1358191--1358472 Score: 388
Period size: 76 Copynumber: 3.7 Consensus size: 76
1358181 ACCCCGTTAA
* *
1358191 TCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGACACTCCAACCCCGGTTTTATTTCTAAA
1 TCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAA
1358256 ACATCAATTTT
66 ACATCAATTTT
* *
1358267 TCATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAA
1 TCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAA
* *
1358332 ATAT-TATTTT
66 ACATCAATTTT
* * * * *
1358342 CTCATAATCGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAATCCCGATTTTATTTC
1 -TC---ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTC
1358407 TAAAACA-CAAATTTT
62 TAAAACATC-AATTTT
* *
1358422 TCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATGCTACAACCCCG
1 TCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
1358473 TTACTTCCCA
Statistics
Matches: 179, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
75 5 0.03
76 109 0.61
79 60 0.34
80 5 0.03
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (76 bp):
TCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAA
ACATCAATTTT
Found at i:1358459 original size:28 final size:28
Alignment explanation
Indices: 1358427--1358500 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
1358417 ATTTTTCATC
* * *
1358427 GGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTACTTCCCA
* *
1358455 GGGGATGCTACAACCCCGTTACTTCCCA
1 GGGGATACTCCAACCCCGTTACTTCCCA
*
1358483 GGGGATACTCCAATCCCG
1 GGGGATACTCCAACCCCG
1358501 ATTTTATTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTACTTCCCA
Found at i:1358475 original size:104 final size:104
Alignment explanation
Indices: 1358351--1358547 Score: 342
Period size: 104 Copynumber: 1.9 Consensus size: 104
1358341 TCTCATAATC
* * *
1358351 GGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAATCCCGATTTTATTTCTAAAACA-C
1 GGGGATACTACAACCCCGTTACTTCCCAGGGGATACTCCAATCCCGATTTTATTTCTAAAACATC
1358415 AAATTTTTCATCGGGGATACTCCAACCCCGTTATTTTCGA
66 -AATTTTTCATCGGGGATACTCCAACCCCGTTATTTTCGA
*
1358455 GGGGATGCTACAACCCCGTTACTTCCCAGGGGATACTCCAATCCCGATTTTATTTCTAAAACATC
1 GGGGATACTACAACCCCGTTACTTCCCAGGGGATACTCCAATCCCGATTTTATTTCTAAAACATC
1358520 AATTTTTCATCGGGGATACTCCAACCCC
66 AATTTTTCATCGGGGATACTCCAACCCC
1358548 AGCTTCATTT
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 87 0.99
105 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (104 bp):
GGGGATACTACAACCCCGTTACTTCCCAGGGGATACTCCAATCCCGATTTTATTTCTAAAACATC
AATTTTTCATCGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:1358558 original size:48 final size:50
Alignment explanation
Indices: 1358483--1358650 Score: 164
Period size: 51 Copynumber: 3.4 Consensus size: 50
1358473 TTACTTCCCA
* * * *
1358483 GGGGATACTCCAATCCC-GATTTTATTTCTAAAACATCAATTT-T-TCATC
1 GGGGATACTCCAACCCCAGA-CTTATTTCTAAAATATCGATTTCTCTCATC
* * *
1358531 GGGGATACTCCAACCCCAG-CTTCATTTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCAGACTT-ATTTCTAAAATATCGATTTCTCTC-ATC
* * * *
1358582 GGGGATACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCATAATC
1 GGGGATACTCCAACCCCAGACTTATTTCTAAAATATCGATTTCTC-TCATC
*
1358633 AGGGATACTCCAACCCCA
1 GGGGATACTCCAACCCCA
1358651 TTATTTTCAC
Statistics
Matches: 97, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
47 2 0.02
48 31 0.32
49 2 0.02
50 1 0.01
51 58 0.60
52 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCCAGACTTATTTCTAAAATATCGATTTCTCTCATC
Found at i:1358596 original size:51 final size:51
Alignment explanation
Indices: 1358528--1358650 Score: 176
Period size: 51 Copynumber: 2.4 Consensus size: 51
1358518 TCAATTTTTC
*
1358528 ATCGGGGATACTCCAACCCCAG-CTTCATTTCCAAAATATTGATTTCTCACA
1 ATCGGGGATACTCCAACCCCAGCCTT-ATTTCCAAAATATCGATTTCTCACA
* * * *
1358579 ATCGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCATA
1 ATCGGGGATACTCCAACCCCAGCCTTATTTCCAAAATATCGATTTCTCACA
*
1358630 ATCAGGGATACTCCAACCCCA
1 ATCGGGGATACTCCAACCCCA
1358651 TTATTTTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 60 0.95
52 3 0.05
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCAGCCTTATTTCCAAAATATCGATTTCTCACA
Found at i:1358712 original size:79 final size:79
Alignment explanation
Indices: 1358581--1358728 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
1358571 TTCTCACAAT
* * * *
1358581 CGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATCGATTTCTCATAATCAGGGATACTCCAA
1 CGGGGATACTCCAACCCCGACCTTATTTCTAAAACATCAATTTCTCATAATCAGGGATACTCCAA
1358646 CCCCATTATTTTCA
66 CCCCATTATTTTCA
** *
1358660 CGGGGATACTCCAACCCCGATGTTATTTTTAAAACATCAATTT-TCTATAATCAGGGATACTCCA
1 CGGGGATACTCCAACCCCGACCTTATTTCTAAAACATCAATTTCTC-ATAATCAGGGATACTCCA
1358724 ACCCC
65 ACCCC
1358729 GTTACTATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 2 0.03
79 59 0.97
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGACCTTATTTCTAAAACATCAATTTCTCATAATCAGGGATACTCCAA
CCCCATTATTTTCA
Found at i:1361370 original size:13 final size:13
Alignment explanation
Indices: 1361352--1361389 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1361342 ATAAACCCTT
*
1361352 TGTATCGATACAC
1 TGTATCGATACAA
1361365 TGTATCGATACAA
1 TGTATCGATACAA
1361378 TGTATCGATACA
1 TGTATCGATACA
1361390 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1367565 original size:33 final size:32
Alignment explanation
Indices: 1367523--1367584 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
1367513 TACAAGCCAA
*
1367523 TGTATCGATACATTTTGAGATGTATCGATATAT
1 TGTATCGATACATCTTGAG-TGTATCGATATAT
*
1367556 TGTATCGATACATCTTGTGTGTATCGATA
1 TGTATCGATACATCTTGAGTGTATCGATA
1367585 CAAACAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATCTTGAGTGTATCGATATAT
Found at i:1369339 original size:12 final size:11
Alignment explanation
Indices: 1369315--1369348 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
1369305 TAAATTTAAT
1369315 TATAAAAAT-A
1 TATAAAAATAA
1369325 TATAAAAACTAA
1 TATAAAAA-TAA
1369337 TATAAAAATAA
1 TATAAAAATAA
1369348 T
1 T
1369349 TTTTAATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
TATAAAAATAA
Found at i:1369544 original size:2 final size:2
Alignment explanation
Indices: 1369537--1369572 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1369527 CCATGCATAC
1369537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1369573 GGGATGTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1374857 original size:27 final size:27
Alignment explanation
Indices: 1374824--1374879 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
1374814 TAAATAAGTC
*
1374824 AATTTAATTTAATTTT-ATATGATATTT
1 AATTTAATTTAATTTTGATATAAT-TTT
1374851 AATTTAATTTAATTTTGATATAATTTT
1 AATTTAATTTAATTTTGATATAATTTT
1374878 AA
1 AA
1374880 AAAATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (27 bp):
AATTTAATTTAATTTTGATATAATTTT
Found at i:1375693 original size:27 final size:30
Alignment explanation
Indices: 1375663--1375717 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
1375653 ATAAATAAAA
1375663 TTAAA-ATATCTTAAA-A-TATTTTATTTT
1 TTAAATATATCTTAAATATTATTTTATTTT
*
1375690 TTAAATATATTTTAAATATTATTTTATT
1 TTAAATATATCTTAAATATTATTTTATT
1375718 AATTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 9 0.38
29 1 0.04
30 9 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TTAAATATATCTTAAATATTATTTTATTTT
Found at i:1375712 original size:12 final size:12
Alignment explanation
Indices: 1375684--1375715 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1375674 TAAAATATTT
1375684 TATT-TTTTAAA
1 TATTATTTTAAA
1375695 TA-TATTTTAAA
1 TATTATTTTAAA
1375706 TATTATTTTA
1 TATTATTTTA
1375716 TTAATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 11 0.58
12 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTTTAAA
Found at i:1378560 original size:20 final size:21
Alignment explanation
Indices: 1378521--1378565 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
1378511 ATTTATTATT
*
1378521 TTATTTATTTTAAAAATATATAA
1 TTATTTATTTT--AAATATAAAA
1378544 TTATTTATTTT-AATATAAAA
1 TTATTTATTTTAAATATAAAA
1378564 TT
1 TT
1378566 TATTAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
23 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTTATTTTAAATATAAAA
Found at i:1379897 original size:42 final size:39
Alignment explanation
Indices: 1379838--1379916 Score: 97
Period size: 39 Copynumber: 1.9 Consensus size: 39
1379828 TTAATTTTCA
*
1379838 TTTAATATAATTCTATTTAAAAATTTAATTATAAAATATATT
1 TTTAATATAATTATATTT-AAAA--TAATTATAAAATATATT
*
1379880 TTTAAT-TATATTATATTTAAAATAATTATAAATTATA
1 TTTAATATA-ATTATATTTAAAATAATTATAAAATATA
1379917 ATTACATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 14 0.41
41 6 0.18
42 14 0.41
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (39 bp):
TTTAATATAATTATATTTAAAATAATTATAAAATATATT
Found at i:1380555 original size:15 final size:15
Alignment explanation
Indices: 1380447--1380547 Score: 52
Period size: 14 Copynumber: 6.9 Consensus size: 15
1380437 TTTAAAATTT
1380447 ATATAAAATAAATTATTA
1 ATAT-AAATAAA-TA-TA
* *
1380465 ATAT-ATTAAA-ATT
1 ATATAAATAAATATA
* *
1380478 ATATAAAT-TATAAA
1 ATATAAATAAATATA
*
1380492 ATAT-ATTAAATATA
1 ATATAAATAAATATA
* *
1380506 ATTTTAATATAATA-A
1 ATATAAATA-AATATA
*
1380521 A-ATATATAAATATA
1 ATATAAATAAATATA
1380535 ATATAAATAAATA
1 ATATAAATAAATA
1380548 AATTATAACT
Statistics
Matches: 61, Mismatches: 15, Indels: 17
0.66 0.16 0.18
Matches are distributed among these distances:
13 12 0.20
14 21 0.34
15 15 0.25
16 9 0.15
18 4 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATAAATAAATATA
Found at i:1382752 original size:27 final size:27
Alignment explanation
Indices: 1382691--1382752 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
1382681 GCTAACTTGG
**
1382691 TATAATAATGAGTAGGCAGTGGATAAA
1 TATAATAACAAGTAGGCAGTGGATAAA
*
1382718 TGTAATAACAAGTAGGCAGTGGATAAA
1 TATAATAACAAGTAGGCAGTGGATAAA
*
1382745 TATTATAA
1 TATAATAA
1382753 AGATATGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (27 bp):
TATAATAACAAGTAGGCAGTGGATAAA
Found at i:1384846 original size:2 final size:2
Alignment explanation
Indices: 1384839--1384865 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1384829 CTGAAGGTTT
1384839 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1384866 GCTAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1387507 original size:9 final size:8
Alignment explanation
Indices: 1387480--1387504 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1387470 AAGTTATTAG
1387480 ATGATAAA
1 ATGATAAA
1387488 ATGATAAA
1 ATGATAAA
1387496 ATGATAAA
1 ATGATAAA
1387504 A
1 A
1387505 ATGTATATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
ATGATAAA
Found at i:1392732 original size:28 final size:24
Alignment explanation
Indices: 1392663--1392716 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
1392653 TTTTAACTAG
1392663 ATGTATCGATACATTGAATAATGT
1 ATGTATCGATACATTGAATAATGT
1392687 ATGTATCGATACATTGAATAATGT
1 ATGTATCGATACATTGAATAATGT
1392711 ATGTAT
1 ATGTAT
1392717 GTATCGATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (24 bp):
ATGTATCGATACATTGAATAATGT
Found at i:1392743 original size:20 final size:19
Alignment explanation
Indices: 1392715--1392788 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1392705 TAATGTATGT
1392715 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAA-A
* * *
1392735 ATATATCGATACATTCATAC
1 ATGTATCGATACATTGA-AA
*
1392755 ATGTATCGATATATTGAAAA
1 ATGTATCGATACATTG-AAA
1392775 ATGTATCGATACAT
1 ATGTATCGATACAT
1392789 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACATTGAAA
Found at i:1393436 original size:28 final size:28
Alignment explanation
Indices: 1393353--1394014 Score: 855
Period size: 28 Copynumber: 22.9 Consensus size: 28
1393343 AAAAAAAATG
*
1393353 GTGCCACTAACTTGTGTGGGCTTTGAAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAGA
**
1393384 GTTGCCACCAACTCATGTGGGCTTTGAAAGA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAGA
*
1393415 GTGCCACTGACTTGCGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
1393443 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
1393471 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
1393499 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* *
1393528 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
1393556 GTGCCACTGACTTACGTGGGCTTTGAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAGA
*
1393586 GTGCCACTGACTTGTGAGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
1393613 GATGCCACTAACTTGTGGGCTTTGAAAAGA
1 G-TGCCACTGACTTGTGGGCTTTG-AAAGA
*
1393643 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* ** *
1393671 GTGCCACTAACTTGTGGAATTTGAAAAGT
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
1393700 GTGCCACTGATTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
1393728 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
1393757 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
1393785 GTGCCACTGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
1393813 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* *
1393842 GTGCCACCGACCTGTGGGCTTTGAAATGA
1 GTGCCACTGACTTGTGGGCTTTGAAA-GA
*
1393871 GTTGCCACCGACTTGTGTGGGCTTTGAAAGGA
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-GA
*
1393903 GTGCCACTAACTTGTATGGGCTTTGAAAG-
1 GTGCCACTGACTTG--TGGGCTTTGAAAGA
*
1393932 GATGCCACTGACTTGTGGGCTTTGAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAGA
1393961 GTGCCACTGACTCT-TGGGCTTTGAAAAGA
1 GTGCCACTGACT-TGTGGGCTTTG-AAAGA
*
1393990 GTGCCACTGACTCGTGGGC-TTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAA
1394015 AGGATGAACA
Statistics
Matches: 568, Mismatches: 41, Indels: 48
0.86 0.06 0.07
Matches are distributed among these distances:
27 4 0.01
28 282 0.50
29 155 0.27
30 62 0.11
31 28 0.05
32 37 0.07
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGA
Found at i:1393564 original size:85 final size:85
Alignment explanation
Indices: 1393353--1394014 Score: 859
Period size: 85 Copynumber: 7.6 Consensus size: 85
1393343 AAAAAAAATG
* ** *
1393353 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCATGTGGGCTTTGAAAGAGTG
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAGGGTG
*
1393418 CCACTGACTTGCGGGCTTTG-AAAGA
60 CCACTGACTTGTGGGCTTTGAAAAGA
1393443 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
1393508 ACTTGTGGGCTTTGAAAAGA
66 ACTTGTGGGCTTTGAAAAGA
* *
1393528 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTACGTGGGCTTTGAAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGGGTGCCAC
* *
1393593 TGACTTGTGAGCTTTGAAAGGA
64 TGACTTGTGGGCTTTGAAAAGA
*
1393615 -TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
* ** *
1393679 AACTTGTGGAATTTGAAAAGT
65 GACTTGTGGGCTTTGAAAAGA
* * *
1393700 GTGCCACTGATTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACT
1393765 GACTTGTGGGCTTTG-AAAGA
65 GACTTGTGGGCTTTGAAAAGA
* * * *
1393785 GTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACC
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACT
* *
1393850 GACCTGTGGGCTTTGAAATGA
65 GACTTGTGGGCTTTGAAAAGA
* * *
1393871 GTTGCCACCGACTTGTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTATGGGCTTTGAAAGGATG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-GAGTGCCACTGACTTG--TGGGCTTTGAAAGGGTG
*
1393936 CCACTGACTTGTGGGCTTTG-AAAGG
60 CCACTGACTTGTGGGCTTTGAAAAGA
*
1393961 GTGCCACTGACTCT-TGGGCTTTGAAAAGAGTGCCACTGACTCGTGGGC-TTGAAA
1 GTGCCACTGACT-TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1394015 AGGATGAACA
Statistics
Matches: 513, Mismatches: 45, Indels: 34
0.87 0.08 0.06
Matches are distributed among these distances:
84 43 0.08
85 192 0.37
86 80 0.16
87 97 0.19
88 17 0.03
89 23 0.04
90 28 0.05
91 24 0.05
92 9 0.02
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (85 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
ACTTGTGGGCTTTGAAAAGA
Found at i:1394017 original size:57 final size:57
Alignment explanation
Indices: 1393353--1394014 Score: 870
Period size: 57 Copynumber: 11.5 Consensus size: 57
1393343 AAAAAAAATG
* * **
1393353 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCATGTGGGCTTTG-AAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTGAAAAGA
* *
1393415 GTGCCACTGACTTGCGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
1393471 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1393528 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTACGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGA
* * *
1393586 GTGCCACTGACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* ** *
1393643 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGAATTTGAAAAGT
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1393700 GTGCCACTGATTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1393757 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
1393813 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACCGACCTGTGGGCTTTGAAATGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1393871 GTTGCCACCGACTTGTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTATGGGCTTTGAAAGGA
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAGG-GTGCCACTGACTTG--TGGGCTTTGAAAAGA
1393934 -TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCT-TGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT-TGTGGGCTTTGAAAAGA
*
1393990 GTGCCACTGACTCGTGGGC-TTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAA
1394015 AGGATGAACA
Statistics
Matches: 542, Mismatches: 44, Indels: 34
0.87 0.07 0.05
Matches are distributed among these distances:
56 122 0.23
57 243 0.45
58 65 0.12
59 40 0.07
60 16 0.03
61 32 0.06
62 10 0.02
63 14 0.03
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (57 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:1395248 original size:13 final size:12
Alignment explanation
Indices: 1395223--1395298 Score: 84
Period size: 12 Copynumber: 6.3 Consensus size: 12
1395213 ATCTAGACCC
*
1395223 TTTTCTTTTTTT
1 TTTTGTTTTTTT
*
1395235 TTTTGCTATTTTT
1 TTTTG-TTTTTTT
* *
1395248 TCTTG-GTTTTT
1 TTTTGTTTTTTT
1395259 TTTTGTTTTTTT
1 TTTTGTTTTTTT
1395271 GTTTTG-TTTTTT
1 -TTTTGTTTTTTT
1395283 TTTTGTTTTTTT
1 TTTTGTTTTTTT
1395295 TTTT
1 TTTT
1395299 TGTAAAGGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
11 14 0.26
12 25 0.46
13 15 0.28
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:1395248 original size:22 final size:20
Alignment explanation
Indices: 1395223--1395299 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 20
1395213 ATCTAGACCC
1395223 TTTTCTTTTTTTTTTTGCTATT
1 TTTTCTTTTTTTTTTTG-T-TT
1395245 TTTTCTTGGTTTTTTTTTGTTT
1 TTTTCTT--TTTTTTTTTGTTT
*
1395267 TTTTGTTTTGTTTTTTT-TTT
1 TTTTCTTTT-TTTTTTTGTTT
1395287 GTTTT-TTTTTTTT
1 -TTTTCTTTTTTTT
1395300 GTAAAGGACG
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
19 4 0.08
20 9 0.18
21 11 0.22
22 15 0.30
23 1 0.02
24 10 0.20
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTTGTTT
Found at i:1395258 original size:1 final size:1
Alignment explanation
Indices: 1395254--1395299 Score: 56
Period size: 1 Copynumber: 46.0 Consensus size: 1
1395244 TTTTTCTTGG
* * * *
1395254 TTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1395300 GTAAAGGACG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:1395297 original size:11 final size:11
Alignment explanation
Indices: 1395229--1395297 Score: 84
Period size: 11 Copynumber: 5.9 Consensus size: 11
1395219 ACCCTTTTCT
1395229 TTTTTTTTTTG
1 TTTTTTTTTTG
*
1395240 CTATTTTTTCTTG
1 -T-TTTTTTTTTG
*
1395253 GTTTTTTTTTG
1 TTTTTTTTTTG
1395264 TTTTTTTGTTTTG
1 -TTTTTT-TTTTG
1395277 TTTTTTTTTTG
1 TTTTTTTTTTG
1395288 TTTTTTTTTT
1 TTTTTTTTTT
1395298 TTGTAAAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
11 24 0.48
12 12 0.24
13 14 0.28
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:1395299 original size:13 final size:13
Alignment explanation
Indices: 1395228--1395301 Score: 75
Period size: 13 Copynumber: 6.0 Consensus size: 13
1395218 GACCCTTTTC
*
1395228 TTTTTTTTTTTGC
1 TTTTTTTTTTTGT
* *
1395241 TATTTTTTCTTG-
1 TTTTTTTTTTTGT
*
1395253 -GTTTTTTTTTGT
1 TTTTTTTTTTTGT
*
1395265 TTTTTTGTTTTG-
1 TTTTTTTTTTTGT
1395277 -TTTTTTTTTTGT
1 TTTTTTTTTTTGT
1395289 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
1395302 AAAGGACGCC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 19 0.38
13 31 0.62
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:1395299 original size:24 final size:24
Alignment explanation
Indices: 1395229--1395301 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
1395219 ACCCTTTTCT
* * *
1395229 TTTTTTTTTTGCTATTTTTTCTTG
1 TTTTTTTTTTGTTTTTTTTTTTTG
* *
1395253 GTTTTTTTTTGTTTTTTTGTTTTG
1 TTTTTTTTTTGTTTTTTTTTTTTG
1395277 TTTTTTTTTTGTTTTTTTTTTTTG
1 TTTTTTTTTTGTTTTTTTTTTTTG
1395301 T
1 T
1395302 AAAGGACGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (24 bp):
TTTTTTTTTTGTTTTTTTTTTTTG
Found at i:1409289 original size:20 final size:19
Alignment explanation
Indices: 1409260--1409334 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
1409250 AAAAAGACAT
1409260 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
1409279 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
1409300 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
1409320 AATGTATCGATACAT
1 AATGTATCGATACAT
1409335 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:1409317 original size:40 final size:39
Alignment explanation
Indices: 1409257--1409334 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
1409247 GGTAAAAAGA
*
1409257 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1409296 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1409335 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1412221 original size:19 final size:20
Alignment explanation
Indices: 1412177--1412228 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1412167 TTACAAGCCA
1412177 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
*
1412197 ATGTATCGATACCTCTT-GT-
1 ATGTATCGATACAT-TTGGTC
1412216 ATGTATCGATACA
1 ATGTATCGATACA
1412229 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:1412316 original size:13 final size:13
Alignment explanation
Indices: 1412298--1412322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1412288 TACAGTGGTC
1412298 ATGTATCAATACA
1 ATGTATCAATACA
1412311 ATGTATCAATAC
1 ATGTATCAATAC
1412323 TGTGCATTAT
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:1412922 original size:24 final size:24
Alignment explanation
Indices: 1412878--1412939 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
1412868 TTTCCTTTTC
1412878 TCTCCCCCTT--AA-AAAAAAATT
1 TCTCCCCCTTAAAACAAAAAAATT
1412899 TCTCCCCCTTAAAACAAAAAAATT
1 TCTCCCCCTTAAAACAAAAAAATT
1412923 TCTCCCCCTTAAAACAA
1 TCTCCCCCTTAAAACAA
1412940 TTTCCTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
21 10 0.26
23 2 0.05
24 26 0.68
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (24 bp):
TCTCCCCCTTAAAACAAAAAAATT
Found at i:1414820 original size:13 final size:13
Alignment explanation
Indices: 1414802--1414840 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1414792 ATAAACCCTT
1414802 TGTATCGATACAG
1 TGTATCGATACAG
*
1414815 TGTATCGATACAA
1 TGTATCGATACAG
1414828 TGTATCGATACAG
1 TGTATCGATACAG
1414841 AGAATGCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1421046 original size:13 final size:13
Alignment explanation
Indices: 1421028--1421053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1421018 ACATTTGGTC
1421028 ATGTATCGATACA
1 ATGTATCGATACA
1421041 ATGTATCGATACA
1 ATGTATCGATACA
1421054 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1421048 original size:33 final size:32
Alignment explanation
Indices: 1421006--1421073 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
1420996 CGTTACAAGC
1421006 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
1421039 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
1421071 CAA
1 CAA
1421074 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:1421160 original size:13 final size:13
Alignment explanation
Indices: 1421142--1421166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1421132 TACAGTGGTC
1421142 ATGTATCGATACA
1 ATGTATCGATACA
1421155 ATGTATCGATAC
1 ATGTATCGATAC
1421167 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:1421184 original size:33 final size:32
Alignment explanation
Indices: 1421125--1421187 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1421115 ATCTTTGCAA
*
1421125 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
1421157 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
1421188 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:1422417 original size:2 final size:2
Alignment explanation
Indices: 1422412--1422438 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1422402 GGTGAAAACA
1422412 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1422439 AACAAAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.