Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 70 of 133
Found at i:13706809 original size:52 final size:52
Alignment explanation
Indices: 13706752--13706859 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 52
13706742 CAATAATCCT
*
13706752 TTTAATAA-ATTTT-TATGAGGGATTATTAAAGGTAATTTTGG-TCAAAACTGCC
1 TTTAATAACATTTTGT-T-AGGGATTATTAAAGGTAATTTTGGCTAAAAAC-GCC
* * *
13706804 TTTAATAACATTTTGTTAGTGATTATTCAAGGTATTTTTGGCTAAAAACGCC
1 TTTAATAACATTTTGTTAGGGATTATTAAAGGTAATTTTGGCTAAAAACGCC
13706856 TTTA
1 TTTA
13706860 GTAATCCCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
52 36 0.73
53 12 0.24
54 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (52 bp):
TTTAATAACATTTTGTTAGGGATTATTAAAGGTAATTTTGGCTAAAAACGCC
Found at i:13706946 original size:35 final size:35
Alignment explanation
Indices: 13706895--13706966 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
13706885 ATTTTATATG
* *
13706895 TGAAGTTAGTTATAGGTTTATGCCCATAAAACATT
1 TGAAGTCAGTTATAGGTTTATGCCCAGAAAACATT
*
13706930 TGAAGTCAGTTGTAGGTTTATGCCCAGAAAACATT
1 TGAAGTCAGTTATAGGTTTATGCCCAGAAAACATT
13706965 TG
1 TG
13706967 GTTTATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (35 bp):
TGAAGTCAGTTATAGGTTTATGCCCAGAAAACATT
Found at i:13710131 original size:28 final size:28
Alignment explanation
Indices: 13710099--13710170 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
13710089 ATTCAAAAAA
*
13710099 GCCATTCAACAAACCAATGCCATACAAT
1 GCCATTCAACAAACCAATACCATACAAT
* *
13710127 GCCATT-AAGCAAAACAATATCATACAAT
1 GCCATTCAA-CAAACCAATACCATACAAT
* *
13710155 ACCATTCAGCAAACCA
1 GCCATTCAACAAACCA
13710171 CAATATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.06
28 33 0.92
29 1 0.03
ACGTcount: A:0.46, C:0.29, G:0.07, T:0.18
Consensus pattern (28 bp):
GCCATTCAACAAACCAATACCATACAAT
Found at i:13711195 original size:128 final size:127
Alignment explanation
Indices: 13711057--13711376 Score: 430
Period size: 128 Copynumber: 2.5 Consensus size: 127
13711047 ATTTAAGATT
* * * * *
13711057 TATTATGCAAAAAATGCCTTTAATAAATTCCTTTAAGAATTTTTAGTGGATTATTGAAGGCATTT
1 TATTATGCAAAAAATACCTTCAATAAATTCCTTTAAAAAATTTCAGTGGATTATTGAAGGCATTT
* * *
13711122 TTGGTAGAAATCAA-CATTCACTAATATTCCCCTAATAAAAATGGAAGGGATTTATTGAAGGCA
66 TTGGTAGAAAT-AAGCATTCACTAATATTCCCCTAATAAAAATGAAAGGGA-ATATTGAAAGCA
* *
13711185 TATTATGCAAAAAATACCTTCAATAAATTCTTTTAAAAACTTTCAGTGGATTATTGAAGGCATTT
1 TATTATGCAAAAAATACCTTCAATAAATTCCTTTAAAAAATTTCAGTGGATTATTGAAGGCATTT
* * ** *
13711250 TTGGTAGAAATAAGCCTTCACTGATATTCTTCTGATAAAAATGAAAGGGAATATTGAAAGCA
66 TTGGTAGAAATAAGCATTCACTAATATTCCCCTAATAAAAATGAAAGGGAATATTGAAAGCA
* *
13711312 TATTATGCAAAAAATACCTTCAATAAATT-CTTTCAAAAAATTTGAG-GGAATTAGTGAAGGCAT
1 TATTATGCAAAAAATACCTTCAATAAATTCCTTT-AAAAAATTTCAGTGG-ATTATTGAAGGCAT
13711375 TT
64 TT
13711377 GTAGTCAAAA
Statistics
Matches: 171, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
126 5 0.03
127 66 0.39
128 100 0.58
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (127 bp):
TATTATGCAAAAAATACCTTCAATAAATTCCTTTAAAAAATTTCAGTGGATTATTGAAGGCATTT
TTGGTAGAAATAAGCATTCACTAATATTCCCCTAATAAAAATGAAAGGGAATATTGAAAGCA
Found at i:13711247 original size:62 final size:59
Alignment explanation
Indices: 13711031--13711400 Score: 193
Period size: 62 Copynumber: 5.9 Consensus size: 59
13711021 TCTCCTCGTT
* *** * * *
13711031 AAAATTTAAGGGGATTATTTAAGATTTATTATGCAAAAAATGCCTTTAATAAATTCCTTTA
1 AAAATTTAA-GGGATTATTGAAGGCAT-TTATGCAAAAAATACCTTCAATAAATTCTTTTA
* * * ** * * * **
13711092 AGAATTTTTAGTGGATTATTGAAGGCATTTTTGGTAGAAATCAACATTCACTAATATTCCCCTAA
1 A-AAATTTAAG-GGATTATTGAAGGCATTTATGCAAAAAAT--ACCTTCAATAA-ATT---CTTT
13711157 TA
58 TA
**
13711159 AAAATGGAAGGGATTTATTGAAGGCATATTATGCAAAAAATACCTTCAATAAATTCTTTTA
1 AAAATTTAAGGGA-TTATTGAAGGCAT-TTATGCAAAAAATACCTTCAATAAATTCTTTTA
* * ** * * *
13711220 AAAACTTTCAGTGGATTATTGAAGGCATTTTTGGTAGAAATAAGCCTTCACTGATATTCTTCTGA
1 AAAA-TTTAAG-GGATTATTGAAGGCATTTATGCAAAAAAT-A-CCTTCAAT-AAATTCTT-T--
13711285 TA
58 TA
** * * *
13711287 AAAATGAAAGGGAATATTGAAAGCATATTATGCAAAAAATACCTTCAATAAATTCTTTCAA
1 AAAATTTAAGGGATTATTGAAGGCAT-TTATGCAAAAAATACCTTCAATAAATTCTTT-TA
* * * *
13711348 AAAATTTGAGGGAATTAGTGAAGGCATTTGTAGTC-AAAAACACCTTCAATAAA
1 AAAATTTAAGGG-ATTATTGAAGGCATTTAT-G-CAAAAAATACCTTCAATAAA
13711401 CCCTTAAAAT
Statistics
Matches: 228, Mismatches: 59, Indels: 43
0.69 0.18 0.13
Matches are distributed among these distances:
61 41 0.18
62 65 0.29
63 25 0.11
64 20 0.09
65 28 0.12
66 30 0.13
67 19 0.08
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (59 bp):
AAAATTTAAGGGATTATTGAAGGCATTTATGCAAAAAATACCTTCAATAAATTCTTTTA
Found at i:13712350 original size:17 final size:17
Alignment explanation
Indices: 13712328--13712360 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13712318 GTTTAAAATT
13712328 TTTCTCCAAA-ACCCATC
1 TTTCT-CAAATACCCATC
13712345 TTTCTCAAATACCCAT
1 TTTCTCAAATACCCAT
13712361 TTCGAGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (17 bp):
TTTCTCAAATACCCATC
Found at i:13719938 original size:292 final size:291
Alignment explanation
Indices: 13719273--13720119 Score: 1312
Period size: 288 Copynumber: 2.9 Consensus size: 291
13719263 TGAATGTTAT
* * *
13719273 TATACTAATTATTAAAATTTGTGTTAATTATATGTATATTTTAACGTGAATTAAGTATTTATTAA
1 TATACTAATTATTAAACTTTGTGTTAATTACATGTATATTTGAACGTGAATTAAGTATTTATTAA
* * * *
13719338 TTTCAATTTCTAAATTTAAGTT--TGTTTCATTTCTTTTAACATTTTTTGTTAATAAAAATAATA
66 TTTCAATTTCTGAATTTAAGTTCAT-TTTTATTTCTTTTAACTTTTTTTGTTAATGAAAATAATA
* * * * * *
13719401 AACATTTAAAGAATTTTTTTTTAAAAAAA-TAAATTTCTTAATTTCGCGGCATTCGTGTTCAAGA
130 AATATTAAAAGAA--TTTTTTTAAAAAAAGTAAATTTCTTAATTTCACAGCGTTCGTGTTCAAAA
*
13719465 ATGCCACTAAATTCTAAATTTAGTGGCATTTATACCATAAAACACCACTAAAAGTAGTAGTG---
193 ATGCCACTAAATTCTAAATTTAGTGGCATTTATACCATAAAACGCCACTAAAAGTAGTAGTGTTC
13719527 TTATAAAAAAATACCACTAAATTAGCGATGTTTG
258 TTATAAAAAAATACCACTAAATTAGCGATGTTTG
*
13719561 TATACTAATTATTAAACTTTGTGTTAATTACATGTATATTTGAACATGAATTAAGTATTTATTAA
1 TATACTAATTATTAAACTTTGTGTTAATTACATGTATATTTGAACGTGAATTAAGTATTTATTAA
*
13719626 TTTCAATTTCTGACTTTAAGTTCATTTTTATTTCTTTTAACTTTTTTTGTTAATGAAAATAATAA
66 TTTCAATTTCTGAATTTAAGTTCATTTTTATTTCTTTTAACTTTTTTTGTTAATGAAAATAATAA
* *
13719691 ATATTAAAATAATTTTTTTAAAAAAAGTAAATTTCTTAATTTCACAGCGTTCATGTTCAAAAATG
131 ATATTAAAAGAATTTTTTTAAAAAAAGTAAATTTCTTAATTTCACAGCGTTCGTGTTCAAAAATG
13719756 CCACTAAATTCTAAATTTAGTGGCATTTATACCATAAAACGCCACTAAAAGTAGTAGTGTTCTTA
196 CCACTAAATTCTAAATTTAGTGGCATTTATACCATAAAACGCCACTAAAAGTAGTAGTGTTCTTA
**
13719821 TAAAAAAAATGTCACTAAATTAGCGATGTTTG
261 T-AAAAAAATACCACTAAATTAGCGATGTTTG
* *
13719853 TATACTAATTATTAAACTTTTTGTTAATTACATGCATATTTGAACGTGAATTAAGTATTTATTAA
1 TATACTAATTATTAAACTTTGTGTTAATTACATGTATATTTGAACGTGAATTAAGTATTTATTAA
*
13719918 TTTCAATTTTTGAATTTAAGTTCATTTTTATTTCTTTTAACTTTTTTTGTTAATGAAAATAATAA
66 TTTCAATTTCTGAATTTAAGTTCATTTTTATTTCTTTTAACTTTTTTTGTTAATGAAAATAATAA
* **
13719983 ATATTAAAAGAA-ATTTAAAAAAAAAGTAAATTTCTTAATTTCACAGCGTTCGTGTTCAAAAATG
131 ATATTAAAAGAATTTTTTTAAAAAAAGTAAATTTCTTAATTTCACAGCGTTCGTGTTCAAAAATG
* * * * * *
13720047 CCACTAAATTCTAAATTTAGTGGCGTTTGTACCATAAAATGACACTAAAAGTAGCAGGGTTCTTA
196 CCACTAAATTCTAAATTTAGTGGCATTTATACCATAAAACGCCACTAAAAGTAGTAGTGTTCTTA
*
13720112 TTAAAAAA
261 TAAAAAAA
13720120 CGTCGCTAAT
Statistics
Matches: 515, Mismatches: 37, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
287 14 0.03
288 172 0.33
289 46 0.09
290 7 0.01
291 112 0.22
292 164 0.32
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (291 bp):
TATACTAATTATTAAACTTTGTGTTAATTACATGTATATTTGAACGTGAATTAAGTATTTATTAA
TTTCAATTTCTGAATTTAAGTTCATTTTTATTTCTTTTAACTTTTTTTGTTAATGAAAATAATAA
ATATTAAAAGAATTTTTTTAAAAAAAGTAAATTTCTTAATTTCACAGCGTTCGTGTTCAAAAATG
CCACTAAATTCTAAATTTAGTGGCATTTATACCATAAAACGCCACTAAAAGTAGTAGTGTTCTTA
TAAAAAAATACCACTAAATTAGCGATGTTTG
Found at i:13725443 original size:23 final size:23
Alignment explanation
Indices: 13725416--13725470 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
13725406 GATGGTTAAG
**
13725416 GCATGTGCTTGAACCAAGGCCCA
1 GCATGTGCCCGAACCAAGGCCCA
* *
13725439 GCATGTGCCCGAACTAAGGCCTA
1 GCATGTGCCCGAACCAAGGCCCA
13725462 GCATGTGCC
1 GCATGTGCC
13725471 AATGGTGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (23 bp):
GCATGTGCCCGAACCAAGGCCCA
Found at i:13725632 original size:44 final size:45
Alignment explanation
Indices: 13725583--13725684 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 45
13725573 CAGCATGTGT
*
13725583 CGATGGTGGTCAAGACAAGTGCCCATACCAAA-GCTAGCTTATGC
1 CGATGGTGGTCAAGACAAGTGCCCATAACAAAGGCTAGCTTATGC
* * *** *
13725627 CGATGGTGGTCAAGATAGGTGCTTGTAACAAAGGCTAGCTTATGT
1 CGATGGTGGTCAAGACAAGTGCCCATAACAAAGGCTAGCTTATGC
*
13725672 CGATGATGGTCAA
1 CGATGGTGGTCAA
13725685 AGTCTTAACT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 26 0.53
45 23 0.47
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (45 bp):
CGATGGTGGTCAAGACAAGTGCCCATAACAAAGGCTAGCTTATGC
Found at i:13730581 original size:14 final size:14
Alignment explanation
Indices: 13730562--13730589 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13730552 CTATTAGAGG
13730562 CCCAAGTCATGGGA
1 CCCAAGTCATGGGA
13730576 CCCAAGTCATGGGA
1 CCCAAGTCATGGGA
13730590 AACTAGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (14 bp):
CCCAAGTCATGGGA
Found at i:13766221 original size:20 final size:20
Alignment explanation
Indices: 13766196--13766237 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
13766186 ACTTTAAAGA
13766196 AAACTTAAAACAAGAAAGCT
1 AAACTTAAAACAAGAAAGCT
*
13766216 AAACTTAAAATAAGAAAGCT
1 AAACTTAAAACAAGAAAGCT
13766236 AA
1 AA
13766238 CAAGTTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.17
Consensus pattern (20 bp):
AAACTTAAAACAAGAAAGCT
Found at i:13766763 original size:19 final size:19
Alignment explanation
Indices: 13766736--13766772 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13766726 TCTAAGAAGA
*
13766736 ATTAGGAATAAGAAATCCT
1 ATTAAGAATAAGAAATCCT
*
13766755 ATTAAGAATAGGAAATCC
1 ATTAAGAATAAGAAATCC
13766773 AAATCCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (19 bp):
ATTAAGAATAAGAAATCCT
Found at i:13767073 original size:11 final size:11
Alignment explanation
Indices: 13767034--13767074 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
13767024 ACTCCAAGAT
13767034 TTCCAAGAAC-
1 TTCCAAGAACA
13767044 TTCCAAGAACA
1 TTCCAAGAACA
*
13767055 -TCATAAGAACA
1 TTC-CAAGAACA
13767066 TTCCAAGAA
1 TTCCAAGAA
13767075 TCCATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 12 0.46
11 12 0.46
12 2 0.08
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (11 bp):
TTCCAAGAACA
Found at i:13774754 original size:12 final size:12
Alignment explanation
Indices: 13774737--13774761 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13774727 TTATTGATAG
13774737 AATTTTGTTGCT
1 AATTTTGTTGCT
13774749 AATTTTGTTGCT
1 AATTTTGTTGCT
13774761 A
1 A
13774762 TGGCTAAACA
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:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (12 bp):
AATTTTGTTGCT
Found at i:13775041 original size:18 final size:19
Alignment explanation
Indices: 13775006--13775046 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
13774996 CTAGTTTTTC
*
13775006 TTTT-TTTCTTTCTTATCT
1 TTTTATTTCTTTCTAATCT
13775024 TTTTATTTCTTT-TAATCT
1 TTTTATTTCTTTCTAATCT
13775042 TTTTA
1 TTTTA
13775047 AACACTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTTCTTTCTAATCT
Found at i:13791429 original size:21 final size:21
Alignment explanation
Indices: 13791403--13791442 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13791393 AACAAGCCTT
13791403 TCTGAAAAATAAAAAAATCTG
1 TCTGAAAAATAAAAAAATCTG
*
13791424 TCTGAAAAGTAAAAAAATC
1 TCTGAAAAATAAAAAAATC
13791443 CGGCTTCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
TCTGAAAAATAAAAAAATCTG
Found at i:13798794 original size:222 final size:213
Alignment explanation
Indices: 13798431--13798866 Score: 712
Period size: 222 Copynumber: 2.0 Consensus size: 213
13798421 TTGAAGTTTG
13798431 GACCAATGCCTTTTGTGGCAATTTTTATTTTAATTTGAACATTCTTTCTATAAGCATGTGTGCTG
1 GACCAATGCCTTTTGTGGCAATTTTTATTTTAATTTGAACATTCTTTCTATAAGCATGTGTGCTG
13798496 GTCATTACCAGAAGACAGTGAAAACTGTGGTTTGTCTGGTCATAGAACTTATTGTGTTTTTTGAA
66 GTCATTACCAGAAGACAGTGAAAACTGTGGTTTGTCTGGTCATAGAACTTATTGTGTTTTTTGAA
* *
13798561 TGCTAAACAAGGTTTAGAATGATGCTAGTTTTTGACATATATGACATTTGAATTTGAAGGTTCT-
131 TGCTAAACAAGGTTTAGAATGATGCTAGGTTTTGACATATATGACATTGGAATTTGAAGGTTCTG
13798625 ATAGAAATTTGAACCAAT
196 ATAGAAATTTGAACCAAT
* *
13798643 GACCAATGCCTTTTGTGGCATTTTTTTTTTTTTAATTTGAACATTCTTTCTATAAGCATGTGTGC
1 GACCAATGCCTTTTGTGGCA--ATTTTTATTTTAATTTGAACATTCTTTCTATAAGCATGTGTGC
* *
13798708 TGGTCCAACCTTCATTACCAGAGGACAGTGAAAACTGTGGTTTGTCTGTTCATAGAACTTATTGT
64 TGG--------TCATTACCAGAAGACAGTGAAAACTGTGGTTTGTCTGGTCATAGAACTTATTGT
13798773 GTTTTTTGAATGCTAAACAAGGTTTAGAATGATGCTAGGTTTTGACATATATGACATTGGAATTT
121 GTTTTTTGAATGCTAAACAAGGTTTAGAATGATGCTAGGTTTTGACATATATGACATTGGAATTT
*
13798838 GAAGGTTCTGATAGATATTTGAACCAAT
186 GAAGGTTCTGATAGAAATTTGAACCAAT
13798866 G
1 G
13798867 CCTTTTTTGG
Statistics
Matches: 206, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
212 20 0.10
214 44 0.21
222 124 0.60
223 18 0.09
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (213 bp):
GACCAATGCCTTTTGTGGCAATTTTTATTTTAATTTGAACATTCTTTCTATAAGCATGTGTGCTG
GTCATTACCAGAAGACAGTGAAAACTGTGGTTTGTCTGGTCATAGAACTTATTGTGTTTTTTGAA
TGCTAAACAAGGTTTAGAATGATGCTAGGTTTTGACATATATGACATTGGAATTTGAAGGTTCTG
ATAGAAATTTGAACCAAT
Found at i:13799044 original size:2 final size:2
Alignment explanation
Indices: 13799037--13799062 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13799027 AAGGAAACAT
13799037 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
13799063 AACATAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13804735 original size:39 final size:39
Alignment explanation
Indices: 13804679--13804758 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
13804669 GACTTTGGGC
** **
13804679 TTGGAGGATCTGGTTGGATGTGTTGGAGTTGAAAAGGAG
1 TTGGAGGATCTAATTGGATGTGTTGGACATGAAAAGGAG
* *
13804718 TTGGAGGATCTAATTGGATGTTTTGGACATGAAAGGGAG
1 TTGGAGGATCTAATTGGATGTGTTGGACATGAAAAGGAG
13804757 TT
1 TT
13804759 TGAGAAGATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.25, C:0.04, G:0.39, T:0.33
Consensus pattern (39 bp):
TTGGAGGATCTAATTGGATGTGTTGGACATGAAAAGGAG
Found at i:13805468 original size:146 final size:145
Alignment explanation
Indices: 13805190--13805477 Score: 436
Period size: 146 Copynumber: 2.0 Consensus size: 145
13805180 TGGGCAGCCA
* * *
13805190 TCATGAGGGATTTGCAACTTCCAACAAATGTCGATTCTTTCTTTCAGGAACACCATTTTGCTGAG
1 TCATGAGGGATTTGCAACTTCCAACAAATGTCGATTCTTTCTTTCAGCAACACCATTCTACTGAG
* * *
13805255 GAGTGTCGACACATGAGTGTTGATGAATTATACCATGTTTCATTAGATATGATCCAAGAATTTAA
66 AAGTGTCGACACATGAGTGTTGATAAATTATACCATGTTTCATTAGATATGATCCAAGAATTGAA
13805320 TTGTAGTATTCTTTC
131 TTGTAGTATTCTTTC
* ** *
13805335 TCATGAGGGATCTTGCAACTTTCAACAAATGTCGATTCTTTCATTT-AGCAATGCCATTCTATTG
1 TCATGAGGGAT-TTGCAACTTCCAACAAATGTCGATTCTTTC-TTTCAGCAACACCATTCTACTG
*
13805399 AGAAGTGTCGACACATGAGCT-TTGATAAATTATACCATGTTTCATTAGATATGATCTAAGAATT
64 AGAAGTGTCGACACATGAG-TGTTGATAAATTATACCATGTTTCATTAGATATGATCCAAGAATT
13805463 GAATTGTAGTATTCT
128 GAATTGTAGTATTCT
13805478 CTCCCATTGT
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
145 11 0.09
146 114 0.88
147 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (145 bp):
TCATGAGGGATTTGCAACTTCCAACAAATGTCGATTCTTTCTTTCAGCAACACCATTCTACTGAG
AAGTGTCGACACATGAGTGTTGATAAATTATACCATGTTTCATTAGATATGATCCAAGAATTGAA
TTGTAGTATTCTTTC
Found at i:13806909 original size:63 final size:63
Alignment explanation
Indices: 13806836--13807037 Score: 196
Period size: 63 Copynumber: 3.2 Consensus size: 63
13806826 TAGAGGGGAA
* *
13806836 TATTCAAGGCGTTTTTGCCCAAAAAACGCATTGAATAATCTCTTACAAAAAATTGAATAGGGT
1 TATTCAAGGCGTTTTTGCCCAAAAAACGCCTTGAATAATCCCTTACAAAAAATTGAATAGGGT
* * * * * * ***
13806899 TATTCAAGGCGTTTCTG-GCAAAAAATGCCTTCAATAGTCCCTTTCAATTTATATG-A-AGGGAT
1 TATTCAAGGCGTTTTTGCCCAAAAAACGCCTTGAATAATCCCTTACAAAAAAT-TGAATAGGG-T
* * * *
13806961 TATTCAAGGCGTGTTTGCCCAGAAAACACCTTGAATATTCCCTTACAAAAAATTGAAT-GGAGT
1 TATTCAAGGCGTTTTTGCCCAAAAAACGCCTTGAATAATCCCTTACAAAAAATTGAATAGG-GT
* *
13807024 TATTGAAGGTGTTT
1 TATTCAAGGCGTTT
13807038 GGCCACAAAC
Statistics
Matches: 107, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
61 4 0.04
62 44 0.41
63 58 0.54
64 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (63 bp):
TATTCAAGGCGTTTTTGCCCAAAAAACGCCTTGAATAATCCCTTACAAAAAATTGAATAGGGT
Found at i:13806970 original size:125 final size:122
Alignment explanation
Indices: 13806715--13807037 Score: 346
Period size: 125 Copynumber: 2.6 Consensus size: 122
13806705 ATTAAAGGGG
* * * *
13806715 ATTCAAGGCGTTTTTGGCCAGAAAATGTCTT-AATAATCCTTAGAAAAAATTGAATGGTGTTATT
1 ATTCAAGGCGTTTTTGCCCAGAAAACG-CTTGAATAATCCTTACAAAAAATTGAATGGAGTTATT
** * * * * * * *
13806779 CATTGCATTTATGGCTAAAATCGCTTTGAATAATCCCCTTCATTTTTTAGAGGGGAAT
65 CAAGGCGTTTATGGCAAAAATCGCCTTCAATAATCCCCTTCAATTTATAGAAGGGAAT
*
13806837 ATTCAAGGCGTTTTTGCCCAAAAAACGCATTGAATAATCTCTTACAAAAAATTGAATAGG-GTTA
1 ATTCAAGGCGTTTTTGCCCAGAAAACGC-TTGAATAATC-CTTACAAAAAATTGAAT-GGAGTTA
* * * *
13806901 TTCAAGGCGTTTCTGGCAAAAAAT-GCCTTCAATAGTCCCTTTCAATTTATATGAAGGGATT
63 TTCAAGGCGTTTATGGC-AAAAATCGCCTTCAATAATCCCCTTCAATTTATA-GAAGGGAAT
* * *
13806962 ATTCAAGGCGTGTTTGCCCAGAAAACACCTTGAATATTCCCTTACAAAAAATTGAATGGAGTTAT
1 ATTCAAGGCGTTTTTGCCCAGAAAAC-GCTTGAATAAT-CCTTACAAAAAATTGAATGGAGTTAT
* *
13807027 TGAAGGTGTTT
64 TCAAGGCGTTT
13807038 GGCCACAAAC
Statistics
Matches: 169, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
121 1 0.01
122 26 0.15
123 7 0.04
124 56 0.33
125 77 0.46
126 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (122 bp):
ATTCAAGGCGTTTTTGCCCAGAAAACGCTTGAATAATCCTTACAAAAAATTGAATGGAGTTATTC
AAGGCGTTTATGGCAAAAATCGCCTTCAATAATCCCCTTCAATTTATAGAAGGGAAT
Found at i:13810568 original size:5 final size:5
Alignment explanation
Indices: 13810558--13810599 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
13810548 AGAAGGAAGA
*
13810558 AAAAG AAAAG AAAAG AAAAG AAAA- AAAGG AAAA- AAAATG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G AAA
13810600 TTATTTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 7 0.22
5 22 0.69
6 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:13814924 original size:2 final size:2
Alignment explanation
Indices: 13814917--13814947 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13814907 TCGAAGCAAC
13814917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13814948 GTTTGAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13817593 original size:29 final size:30
Alignment explanation
Indices: 13817555--13817620 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
13817545 TGTTTAAATT
*
13817555 ATTTAGAAATA-TTT-AATATAATATTTAAA
1 ATTTAAAAATATTTTAAAT-TAATATTTAAA
*
13817584 ATTTAAAAATATTTTAAATTAGTATTTAAA
1 ATTTAAAAATATTTTAAATTAATATTTAAA
*
13817614 ATATAAA
1 ATTTAAA
13817621 TGTGTTAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 10 0.31
30 19 0.59
31 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (30 bp):
ATTTAAAAATATTTTAAATTAATATTTAAA
Found at i:13818157 original size:29 final size:29
Alignment explanation
Indices: 13818124--13818182 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13818114 AATAATACAT
13818124 TCCTTTAGCTAAGTAATTGTGTCATGATC
1 TCCTTTAGCTAAGTAATTGTGTCATGATC
13818153 TCCTTTAGCTAAGTAATTGTGTCATGATC
1 TCCTTTAGCTAAGTAATTGTGTCATGATC
13818182 T
1 T
13818183 GCGCACTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (29 bp):
TCCTTTAGCTAAGTAATTGTGTCATGATC
Found at i:13819197 original size:64 final size:65
Alignment explanation
Indices: 13819129--13819480 Score: 266
Period size: 65 Copynumber: 5.5 Consensus size: 65
13819119 TTAAAATTTC
* * *
13819129 AAAAATCAATTTTAAACTCATAAAATCCTTT-AATA-TGTTGGTAATATTTTATGAATTAATTTT
1 AAAAATTAATTTTAAACTCATAAAATCCTTTCAATAGT-TTGGTAAGATTTCATGAATTAATTTT
13819192 T
65 T
* * * *
13819193 AAAAATT-ATTTTCAAACTTATAAAAT-GTTTCAATAGCTTGGTATGATTTCAT-ATATTTAATT
1 AAAAATTAATTTT-AAACTCATAAAATCCTTTCAATAGTTTGGTAAGATTTCATGA-A-TTAATT
*
13819255 TTC
63 TTT
* *
13819258 AAAAATTATTTTTAAACATCATAAAAT--TTTCAATAGTTTGGTAAGGTTTCATGAATTTAA---
1 AAAAATTAATTTTAAAC-TCATAAAATCCTTTCAATAGTTTGGTAAGATTTCATGAA-TTAATTT
13819318 TT
64 TT
** * * * * * *
13819320 ATCAATTATTTTTAAATTTCATAAAATCC-TCCAATAGTTTTGTCAGATTTCATGAATTTATTTT
1 AAAAATTAATTTTAAA-CTCATAAAATCCTTTCAATAGTTTGGTAAGATTTCATGAATTAATTTT
13819384 T
65 T
*** *
13819385 AAAAATTAATTTTAAA-TCTATAAAATCAACT-AATAGTTTGATAA-ATGTTCATGAATTTAATT
1 AAAAATTAATTTTAAACTC-ATAAAATCCTTTCAATAGTTTGGTAAGAT-TTCATGAA-TTAATT
*
13819447 TTC
63 TTT
* *
13819450 AAAATTTATTTTTAAA-TACATGAAAATCCTT
1 AAAAATTAATTTTAAACT-CAT-AAAATCCTT
13819481 CAAAATCTTG
Statistics
Matches: 230, Mismatches: 38, Indels: 38
0.75 0.12 0.12
Matches are distributed among these distances:
62 27 0.12
63 36 0.16
64 61 0.27
65 86 0.37
66 20 0.09
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (65 bp):
AAAAATTAATTTTAAACTCATAAAATCCTTTCAATAGTTTGGTAAGATTTCATGAATTAATTTTT
Found at i:13819267 original size:65 final size:65
Alignment explanation
Indices: 13819125--13819461 Score: 245
Period size: 64 Copynumber: 5.2 Consensus size: 65
13819115 TTCATTAAAA
* * *
13819125 TTTCAAAAATCAATTTT-AAAC-TCATAAAATCCTTT-AATATG-TTGGTAATATTTTATGAA-T
1 TTTCAAAAAT-TATTTTCAAACATCATAAAAT--TTTCAATA-GCTTGGTAAGATTTCATGAATT
13819185 TAAT
62 TAAT
* * *
13819189 TTTTAAAAATTATTTTCAAAC-TTATAAAATGTTTCAATAGCTTGGTATGATTTCAT-ATATTTA
1 TTTCAAAAATTATTTTCAAACATCATAAAAT-TTTCAATAGCTTGGTAAGATTTCATGA-ATTTA
13819252 AT
64 AT
* * *
13819254 TTTCAAAAATTATTTTTAAACATCATAAAATTTTCAATAGTTTGGTAAGGTTTCATGAATTTAAT
1 TTTCAAAAATTATTTTCAAACATCATAAAATTTTCAATAGCTTGGTAAGATTTCATGAATTTAAT
* * ** * * * * *
13819319 TATC---AATTATTTTTAAATTTCATAAAATCCTCCAATAGTTTTGTCAGATTTCATGAATTT-A
1 TTTCAAAAATTATTTTCAAACATCATAAAAT-TTTCAATAGCTTGGTAAGATTTCATGAATTTAA
13819380 T
65 T
* *** * *
13819381 TTTTAAAAATTAATTTT--AA-ATCTATAAAATCAACTAATAGTTTGATAA-ATGTTCATGAATT
1 TTTCAAAAATT-ATTTTCAAACATC-ATAAAATTTTC-AATAGCTTGGTAAGAT-TTCATGAATT
13819442 TAAT
62 TAAT
*
13819446 TTTCAAAATTTATTTT
1 TTTCAAAAATTATTTT
13819462 TAAATACATG
Statistics
Matches: 226, Mismatches: 31, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
62 26 0.12
63 42 0.19
64 73 0.32
65 71 0.31
66 14 0.06
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (65 bp):
TTTCAAAAATTATTTTCAAACATCATAAAATTTTCAATAGCTTGGTAAGATTTCATGAATTTAAT
Found at i:13819379 original size:63 final size:62
Alignment explanation
Indices: 13819261--13819479 Score: 167
Period size: 63 Copynumber: 3.4 Consensus size: 62
13819251 AATTTTCAAA
** * * * *
13819261 AATTATTTTTAAACATCATAAAAT-TTTCAATAGTTTGGTAAGGTTTCATGAATTTAATTATC
1 AATTATTTTTAAATTTCATAAAATCCTCCAATAGTTTTGT-AGATTTCATGAATTTAATTATC
* **
13819323 AATTATTTTTAAATTTCATAAAATCCTCCAATAGTTTTGTCAGATTTCATGAATTTATTTTTAAA
1 AATTATTTTTAAATTTCATAAAATCCTCCAATAGTTTTGT-AGATTTCATGAATTTA--ATTATC
* * ** * * *
13819388 AATTAATTTTAAATCT-ATAAAATCAACTAATAG-TTTGATAAATGTTCATGAATTTAATTTTC
1 AATTATTTTTAAATTTCATAAAATCCTCCAATAGTTTTG-TAGAT-TTCATGAATTTAATTATC
*
13819450 AAAATTTATTTTTAAA-TACATGAAAATCCT
1 --AA-TTATTTTTAAATTTCAT-AAAATCCT
13819480 TCAAAATCTT
Statistics
Matches: 122, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
62 24 0.20
63 34 0.28
64 29 0.24
65 29 0.24
66 6 0.05
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (62 bp):
AATTATTTTTAAATTTCATAAAATCCTCCAATAGTTTTGTAGATTTCATGAATTTAATTATC
Found at i:13819420 original size:127 final size:130
Alignment explanation
Indices: 13819237--13819479 Score: 295
Period size: 127 Copynumber: 1.9 Consensus size: 130
13819227 AGCTTGGTAT
* *** *
13819237 GATTTCATATATTTAATTTTCAAAAATTATTTTTAAACATCATAAAATTTTCAATAGTTTGGT-A
1 GATTTCATATATTTAATTTTCAAAAATTAATTTTAAACATCATAAAATCAACAATAGTTTGATAA
* *
13819301 AGGTTTCATGAATTTAATTATC-AA-TTATTTTTAAATTTCAT-AAAATCCTCCAATAGTTTTGT
66 ATG-TTCATGAATTTAATTATCAAATTTATTTTTAAA-TACATGAAAATCCTCCAATAGTTTTGT
13819363 CA
129 CA
*
13819365 GATTTCATGA-ATTT-ATTTTTAAAAATTAATTTT-AA-ATCTATAAAATCAACTAATAGTTTGA
1 GATTTCAT-ATATTTAATTTTCAAAAATTAATTTTAAACATC-ATAAAATCAAC-AATAGTTTGA
*
13819426 TAAATGTTCATGAATTTAATTTTCAAAATTTATTTTTAAATACATGAAAATCCT
63 TAAATGTTCATGAATTTAATTATC-AAATTTATTTTTAAATACATGAAAATCCT
13819480 TCAAAATCTT
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
125 3 0.03
126 10 0.10
127 44 0.45
128 15 0.15
129 7 0.07
130 19 0.19
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (130 bp):
GATTTCATATATTTAATTTTCAAAAATTAATTTTAAACATCATAAAATCAACAATAGTTTGATAA
ATGTTCATGAATTTAATTATCAAATTTATTTTTAAATACATGAAAATCCTCCAATAGTTTTGTCA
Found at i:13840884 original size:60 final size:60
Alignment explanation
Indices: 13840787--13840915 Score: 179
Period size: 60 Copynumber: 2.1 Consensus size: 60
13840777 TTTCAATTTG
* * * * *
13840787 ATGCACTTAGATCTAGTTTGATTTGTTATTTTAAAGTTCATATGCCTGTAATTTTCTCGC
1 ATGCACTTAGAACTAGTTTAATTTGCTATTTTAAAGTTCATATGCATGTAACTTTCTCGC
* *
13840847 ATGCACTTAGAACTAGTTTAATTTGCTACTTTT-AAGTTCATATGCATTTAACTTTCTTGC
1 ATGCACTTAGAACTAGTTTAATTTGCTA-TTTTAAAGTTCATATGCATGTAACTTTCTCGC
13840907 ATGCACTTA
1 ATGCACTTA
13840916 CGGCCTGTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 57 0.93
61 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (60 bp):
ATGCACTTAGAACTAGTTTAATTTGCTATTTTAAAGTTCATATGCATGTAACTTTCTCGC
Found at i:13844176 original size:55 final size:55
Alignment explanation
Indices: 13844117--13844243 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
13844107 TAATATAAAC
* * * *
13844117 TTGTATTTTTTAATTTTCTTACCTATACTAAC-AGTTAGAGATTGTTAGTATAGAA
1 TTGTATGTTTTAATTTTCTTACCTATACCAACGA-CTACAGATTGTTAGTATAGAA
* * * * *
13844172 TTGTATGCTTTAATTTTTTTACCTTTACCGACGACTACAGATTGTTAGTATAGAC
1 TTGTATGTTTTAATTTTCTTACCTATACCAACGACTACAGATTGTTAGTATAGAA
*
13844227 TTATATGTTTTAATTTT
1 TTGTATGTTTTAATTTT
13844244 TTTATTATAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 59 0.98
56 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.49
Consensus pattern (55 bp):
TTGTATGTTTTAATTTTCTTACCTATACCAACGACTACAGATTGTTAGTATAGAA
Found at i:13847466 original size:15 final size:15
Alignment explanation
Indices: 13847446--13847476 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13847436 TTAGTGAACT
13847446 ATTTCTTACATTGCA
1 ATTTCTTACATTGCA
*
13847461 ATTTCTTATATTGCA
1 ATTTCTTACATTGCA
13847476 A
1 A
13847477 AACCTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (15 bp):
ATTTCTTACATTGCA
Found at i:13852042 original size:125 final size:126
Alignment explanation
Indices: 13851810--13852073 Score: 293
Period size: 125 Copynumber: 2.1 Consensus size: 126
13851800 GCATTTTTTA
* * *
13851810 CCAAAAATGCCTTTAATACTCCCCTTTATTTTTTAGGCCAGGATTAATCAAGACATTTTAGCCTA
1 CCAAAAATGCCTTTAAGAATCCCCTTTATTTTTTAGGACAGGATTAATCAAGACATTTTAGCCTA
* *
13851875 AAAAACACCTTGAATAATCTTTTATAAAAAATTAAATAGGGTTATTGAAAG-AATTTCTAG
66 AAAAACACCTTAAATAATCTTTTACAAAAAATTAAATAGGGTTATTGAAAGCAATTTCTAG
** * * *
13851935 CCAAAAATGCCTTTAAGAATCCCCTTTATTTTTTTA-GATGGGATTATTGAAGGCATTTTTAG-C
1 CCAAAAATGCCTTTAAGAATCCCCTTTA-TTTTTTAGGACAGGATTAATCAAGACA-TTTTAGCC
* ** * * * * *
13851998 TAGAAAATGCCTTAAATAAT-TTCTTACAAAATATTGAATGGGGTTATTGAAGGCATTTTCTAG
64 TAAAAAACACCTTAAATAATCTT-TTACAAAAAATTAAATAGGGTTATTGAAAGCAATTTCTAG
**
13852061 TTAAAAATGCCTT
1 CCAAAAATGCCTT
13852074 GAATAATTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
124 2 0.02
125 81 0.70
126 32 0.28
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (126 bp):
CCAAAAATGCCTTTAAGAATCCCCTTTATTTTTTAGGACAGGATTAATCAAGACATTTTAGCCTA
AAAAACACCTTAAATAATCTTTTACAAAAAATTAAATAGGGTTATTGAAAGCAATTTCTAG
Found at i:13852138 original size:47 final size:47
Alignment explanation
Indices: 13852041--13852141 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
13852031 TTGAATGGGG
* ** ** *
13852041 TTATTGAAGGCATTTTCTAGTTAAAAATGCCTTGAATAATTCATGGA
1 TTATTCAAGGCATTTTCTAGCCAAAAATGCCTTGAATAACCCATGAA
* *
13852088 TTATTCAAGGCATTTTTTAGCCAAAACTGCCTT-ATATAACCCATGAA
1 TTATTCAAGGCATTTTCTAGCCAAAAATGCCTTGA-ATAACCCATGAA
13852135 TTATTCA
1 TTATTCA
13852142 TTCTTTGAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
46 1 0.02
47 44 0.98
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (47 bp):
TTATTCAAGGCATTTTCTAGCCAAAAATGCCTTGAATAACCCATGAA
Found at i:13852166 original size:23 final size:23
Alignment explanation
Indices: 13852140--13852211 Score: 57
Period size: 23 Copynumber: 3.4 Consensus size: 23
13852130 ATGAATTATT
13852140 CATTCTTTGAGGATTATTGAAGG
1 CATTCTTTGAGGATTATTGAAGG
* * * *
13852163 CATTTTTTGTGAAATATT-----
1 CATTCTTTGAGGATTATTGAAGG
13852181 CATTC-TTGAGGATTATTGAAGG
1 CATTCTTTGAGGATTATTGAAGG
*
13852203 CATTTTTTG
1 CATTCTTTG
13852212 TGAAAAATGC
Statistics
Matches: 34, Mismatches: 9, Indels: 12
0.62 0.16 0.22
Matches are distributed among these distances:
17 9 0.26
18 4 0.12
22 4 0.12
23 17 0.50
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (23 bp):
CATTCTTTGAGGATTATTGAAGG
Found at i:13852210 original size:41 final size:41
Alignment explanation
Indices: 13852131--13852216 Score: 156
Period size: 40 Copynumber: 2.1 Consensus size: 41
13852121 ATATAACCCA
*
13852131 TGAATTATTCATTCTTTGAGGATTATTGAAGGCATTTTTTG
1 TGAAATATTCATTCTTTGAGGATTATTGAAGGCATTTTTTG
13852172 TGAAATATTCATTC-TTGAGGATTATTGAAGGCATTTTTTG
1 TGAAATATTCATTCTTTGAGGATTATTGAAGGCATTTTTTG
13852212 TGAAA
1 TGAAA
13852217 AATGCCTTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 31 0.70
41 13 0.30
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (41 bp):
TGAAATATTCATTCTTTGAGGATTATTGAAGGCATTTTTTG
Found at i:13856533 original size:64 final size:64
Alignment explanation
Indices: 13856341--13856811 Score: 259
Period size: 64 Copynumber: 7.4 Consensus size: 64
13856331 TTAAATAATT
* * * * * * *
13856341 TATGGATTGTTTAAAGCATTTTTGGCTAAAAATGCCTTCTATAATTCCCTAAACAAAATTTTTTT
1 TATGGATTATTGAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAA-TAAA--TTTTT
13856406 TG
63 TG
* * * * * *
13856408 TATGGATTATTGAAGGCATTTATGGAC-AGAAAA-GTCTTTAATAAT-GCCTTCCATAATTTTTT
1 TATGGATTATTGAAGGCATTTTTGG-CTA-AAAATGCCTTCAATAATCCCCTT-AATAAATTTTT
13856470 TG
63 TG
* * ***
13856472 TATGGATTACTAAAGATGTTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATAAATTTTTAT-
1 TATGGATTATTGAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATAAATTTTT-TG
* * * * * * *
13856536 AAGGGATTATTGAAGGCATTTTTGGCCAAAAATACTTTCAATAATCTCCTCAATAAATTTTTAT-
1 TATGGATTATTGAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATAAATTTTT-TG
* * * * ** **
13856600 AAGGGATTATTAAAGGCATTTTT-GATAAAAAAATATCTTCAATAAT-CCCTT-CCAAATTTTTT
1 TATGGATTATTGAAGGCATTTTTGGCT--AAAAATGCCTTCAATAATCCCCTTAATAAATTTTTT
13856662 -
64 G
* * * * * ***
13856662 TAAAGGATTATTGAAAGCATTTTTGGCAAAAAATACCTTTAATAAT--CCTTTCCAAATTTTGTT
1 T-ATGGATTATTGAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATAAATTTT-TT
13856725 G
64 G
* * * * * ** * *
13856726 -AGGGGATTATTAAAGGCATTTTTTGCCATAAACACCTTTAATAATCCCCCT-A-AAATTTTTTG
1 TA-TGGATTATTGAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATAAATTTTTTG
* *
13856788 TATGGATCATTGAAGGTATTTTTG
1 TATGGATTATTGAAGGCATTTTTG
13856812 ACCGAAAACA
Statistics
Matches: 320, Mismatches: 66, Indels: 41
0.75 0.15 0.10
Matches are distributed among these distances:
61 4 0.01
62 47 0.15
63 79 0.25
64 124 0.39
65 24 0.08
66 5 0.02
67 32 0.10
68 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (64 bp):
TATGGATTATTGAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATAAATTTTTTG
Found at i:13856597 original size:128 final size:125
Alignment explanation
Indices: 13856352--13856709 Score: 330
Period size: 128 Copynumber: 2.8 Consensus size: 125
13856342 ATGGATTGTT
* * * *
13856352 TAAAG-CATTTTTGGCTAAAAATGCCTTCTATAATTCCCTAAACAAAATTTTTTTTGTATGGATT
1 TAAAGACATTTTTGGCTAAAAATGCCTTCAATAA-TCCCTTAA-AAAA-TTTTTTT-AAAGGATT
* * * * * * *
13856416 ATTGAAGGCATTTATGGACAGAAAAGT-CTTTAATAATGCCTTCCAT-AATTTTTTTGTATGGAT
62 ATTGAAGGCATTTTTGGCCA-AAAA-TACTTTAATAAT-CCCTCAATAAATTTTTAT-AAGGGAT
13856479 TAC
123 TAC
** * * *
13856482 TAAAGATGTTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATAAATTTTTATAAGGGATTATT
1 TAAAGACATTTTTGGCTAAAAATGCCTTCAATAAT-CCCTTAAAAAATTTTTTTAAAGGATTATT
*
13856547 GAAGGCATTTTTGGCCAAAAATACTTTCAATAATCTCCTCAATAAATTTTTATAAGGGATTAT
65 GAAGGCATTTTTGGCCAAAAATACTTT-AATAATC-CCTCAATAAATTTTTATAAGGGATTAC
* * ** **
13856610 TAAAGGCATTTTT-GATAAAAAAATATCTTCAATAATCCCTT-CCAAATTTTTTTAAAGGATTAT
1 TAAAGACATTTTTGGCT--AAAAATGCCTTCAATAATCCCTTAAAAAATTTTTTTAAAGGATTAT
* *
13856673 TGAAAGCATTTTTGGCAAAAAATACCTTTAATAATCC
64 TGAAGGCATTTTTGGCCAAAAATA-CTTTAATAATCC
13856710 TTTCCAAATT
Statistics
Matches: 191, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
126 2 0.01
127 58 0.30
128 61 0.32
129 30 0.16
130 9 0.05
131 31 0.16
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (125 bp):
TAAAGACATTTTTGGCTAAAAATGCCTTCAATAATCCCTTAAAAAATTTTTTTAAAGGATTATTG
AAGGCATTTTTGGCCAAAAATACTTTAATAATCCCTCAATAAATTTTTATAAGGGATTAC
Found at i:13856673 original size:63 final size:61
Alignment explanation
Indices: 13856411--13856748 Score: 261
Period size: 64 Copynumber: 5.3 Consensus size: 61
13856401 TTTTTTGTAT
* * * * * * * *
13856411 GGATTATTGAAGGCATTTATGGACAGAAAAGT-CTTTAATAATGCCTTCCATAATTTTTTTGTAT
1 GGATTATTAAAGGCATTTTTGG-CA-AAAAATACTTCAATAATCCCTTCCA-AATTTTTAT-AAG
* *** * * **
13856475 GGATTACTAAAGATGTTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATAAATTTTTATAAG
1 GGATTATTAAAGGCATTTTTGGCAAAAAAT-ACTTCAATAAT-CCCTT-CCAAATTTTTATAAG
* * *
13856539 GGATTATTGAAGGCATTTTTGGCCAAAAATACTTTCAATAATCTCC-TCAATAAATTTTTATAAG
1 GGATTATTAAAGGCATTTTTGGCAAAAAATAC-TTCAATAATC-CCTTC--CAAATTTTTATAAG
** * *
13856603 GGATTATTAAAGGCATTTTTGATAAAAAAATATCTTCAATAATCCCTTCCAAATTTTTTTAAA
1 GGATTATTAAAGGCATTTTTG-GCAAAAAATA-CTTCAATAATCCCTTCCAAATTTTTATAAG
* * *
13856666 GGATTATTGAAA-GCATTTTTGGCAAAAAATACCTTTAATAATCCTTTCCAAATTTTGT-TGAGG
1 GGATTATT-AAAGGCATTTTTGGCAAAAAATA-CTTCAATAATCCCTTCCAAATTTT-TAT-AAG
13856729 GGATTATTAAAGGCATTTTT
1 GGATTATTAAAGGCATTTTT
13856749 TGCCATAAAC
Statistics
Matches: 222, Mismatches: 37, Indels: 31
0.77 0.13 0.11
Matches are distributed among these distances:
62 39 0.18
63 50 0.23
64 100 0.45
65 31 0.14
66 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (61 bp):
GGATTATTAAAGGCATTTTTGGCAAAAAATACTTCAATAATCCCTTCCAAATTTTTATAAG
Found at i:13856750 original size:127 final size:128
Alignment explanation
Indices: 13856507--13856748 Score: 316
Period size: 127 Copynumber: 1.9 Consensus size: 128
13856497 CTAAAAATGC
* * * *
13856507 CTTCAATAATCCCCTTAATAAATTTTTATAAGGGATTATTGAAGGCATTTTTGGCCAAAAATACT
1 CTTCAATAATCCCCTTAACAAATTTTTATAAAGGATTATTGAAAGCATTTTTGGCAAAAAATACT
*
13856572 TTCAATAATCTCCTCAATAAATTTTTATAAGGGATTATTAAAGGCATTTTTGATAAAAAAATAT
66 TTCAATAATCTCCTC-ACAAATTTTTATAAGGGATTATTAAAGGCATTTTTGATAAAAAAATAT
* *
13856636 CTTCAATAAT-CCCTT-CCAAATTTTTTTAAAGGATTATTGAAAGCATTTTTGGCAAAAAATACC
1 CTTCAATAATCCCCTTAACAAATTTTTATAAAGGATTATTGAAAGCATTTTTGGCAAAAAATA-C
* *
13856699 TTT-AATAATC-CTTTC-CAAATTTTGT-TGAGGGGATTATTAAAGGCATTTTT
65 TTTCAATAATCTC-CTCACAAATTTT-TAT-AAGGGATTATTAAAGGCATTTTT
13856749 TGCCATAAAC
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
125 8 0.08
126 24 0.24
127 49 0.49
128 9 0.09
129 10 0.10
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (128 bp):
CTTCAATAATCCCCTTAACAAATTTTTATAAAGGATTATTGAAAGCATTTTTGGCAAAAAATACT
TTCAATAATCTCCTCACAAATTTTTATAAGGGATTATTAAAGGCATTTTTGATAAAAAAATAT
Found at i:13856763 original size:63 final size:62
Alignment explanation
Indices: 13856401--13856897 Score: 219
Period size: 64 Copynumber: 7.9 Consensus size: 62
13856391 AAACAAAATT
* * * * * ** *
13856401 TTTTTTGTATGGATTATTGAAGGCATTTATGGACAGAAAA-GTCTTTAATAATGCCTTCCATAA
1 TTTTTTGAAAGGATTATTGAAAGCATTTTTGG-CAAAAAACACCTTTAATAATCCCTTCCA-AA
* * * * ** * **
13856464 TTTTTTTGTATGGATTACT-AAAG-ATGTTTTTGGCTAAAAATGCCTTCAATAATCCCCTTAATA
1 -TTTTTTGAAAGGATTATTGAAAGCA--TTTTTGGCAAAAAACACCTTTAATAAT-CCCTT-CCA
13856527 AA
61 AA
* * * * *
13856529 TTTTTAT-AAGGGATTATTGAAGGCATTTTTGGCCAAAAATA-CTTTCAATAATCTCC-TCAATA
1 TTTTT-TGAAAGGATTATTGAAAGCATTTTTGGCAAAAAACACCTTT-AATAATC-CCTTC--CA
13856591 AA
61 AA
* ** * * *
13856593 TTTTTAT-AAGGGATTATT-AAAGGCATTTTTGATAAAAAAATATCTTCAATAATCCCTTCCAAA
1 TTTTT-TGAAAGGATTATTGAAA-GCATTTTTG-GCAAAAAACACCTTTAATAATCCCTTCCAAA
* * *
13856656 TTTTTTTAAAGGATTATTGAAAGCATTTTTGGCAAAAAATACCTTTAATAATCCTTTCCAAA
1 TTTTTTGAAAGGATTATTGAAAGCATTTTTGGCAAAAAACACCTTTAATAATCCCTTCCAAA
** * * *
13856718 TTTTGTTGAGGGGATTATT-AAAGGCATTTTTTGCCATAAACACCTTTAATAATCCC--CCTAAA
1 TTTT-TTGAAAGGATTATTGAAA-GCATTTTTGGCAAAAAACACCTTTAATAATCCCTTCC--AA
13856780 A
62 A
* * * * * * ** * * * *
13856781 TTTTTTGTATGGATCATTGAAGGTATTTTTGACCGAAAACACCTTCAATATTCTCTTTCTAAAA
1 TTTTTTGAAAGGATTATTGAAAGCATTTTTGGCAAAAAACACCTTTAATAATC-CCTTC-CAAA
* * * * * *
13856845 TTTTTT-AAATGGATTTTTGAAGGC-GTTTTGACCAAAAACACCTTCAATAATCC
1 TTTTTTGAAA-GGATTATTGAAAGCATTTTTGGCAAAAAACACCTTTAATAATCC
13856898 TATTCAATTT
Statistics
Matches: 345, Mismatches: 60, Indels: 58
0.75 0.13 0.13
Matches are distributed among these distances:
61 2 0.01
62 70 0.20
63 117 0.34
64 124 0.36
65 27 0.08
66 5 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (62 bp):
TTTTTTGAAAGGATTATTGAAAGCATTTTTGGCAAAAAACACCTTTAATAATCCCTTCCAAA
Found at i:13858350 original size:12 final size:12
Alignment explanation
Indices: 13858333--13858358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13858323 CTTTGGTTTC
13858333 CACCATCATCAT
1 CACCATCATCAT
13858345 CACCATCATCAT
1 CACCATCATCAT
13858357 CA
1 CA
13858359 TCCTCATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (12 bp):
CACCATCATCAT
Found at i:13860833 original size:22 final size:22
Alignment explanation
Indices: 13860802--13860844 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13860792 TTCTTCTCTC
13860802 TTTTAGTTC-TTAGTTTTAGTTT
1 TTTTAGTTCTTTAG-TTTAGTTT
*
13860824 TTTTATTTCTTTAGTTTAGTT
1 TTTTAGTTCTTTAGTTTAGTT
13860845 ATTGGCTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.70
Consensus pattern (22 bp):
TTTTAGTTCTTTAGTTTAGTTT
Found at i:13863980 original size:25 final size:25
Alignment explanation
Indices: 13863951--13864007 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
13863941 TTTTTTATTA
13863951 AATTTTTTTTAATCACAATGATAAT
1 AATTTTTTTTAATCACAATGATAAT
* * *
13863976 AATTTTTTTTAATTATAATTATAAT
1 AATTTTTTTTAATCACAATGATAAT
13864001 AATTTTT
1 AATTTTT
13864008 ATTATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTTTTTTTAATCACAATGATAAT
Found at i:13873948 original size:21 final size:21
Alignment explanation
Indices: 13873922--13873961 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13873912 CTCCTATTCT
* *
13873922 TCAAGTTGTTGATGTTGATAC
1 TCAAGTTGGTGATATTGATAC
13873943 TCAAGTTGGTGATATTGAT
1 TCAAGTTGGTGATATTGAT
13873962 GTTCAACGTG
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:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (21 bp):
TCAAGTTGGTGATATTGATAC
Found at i:13873967 original size:21 final size:21
Alignment explanation
Indices: 13873921--13873967 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13873911 CCTCCTATTC
* *
13873921 TTCAAGTTGTTGATGTTGATA
1 TTCAAGTTGGTGATATTGATA
* *
13873942 CTCAAGTTGGTGATATTGATG
1 TTCAAGTTGGTGATATTGATA
13873963 TTCAA
1 TTCAA
13873968 CGTGATGAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (21 bp):
TTCAAGTTGGTGATATTGATA
Found at i:13879327 original size:21 final size:20
Alignment explanation
Indices: 13879290--13879328 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13879280 ATTTGTATTT
13879290 TTAATTTTTTTAGTATTAGA
1 TTAATTTTTTTAGTATTAGA
*
13879310 TTAATTTTTATTATTATTA
1 TTAATTTTT-TTAGTATTA
13879329 TTTTTATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTAATTTTTTTAGTATTAGA
Found at i:13880889 original size:25 final size:24
Alignment explanation
Indices: 13880839--13880891 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13880829 TCTCTTTAAT
* *
13880839 TATTATTTATTATTTATTTTTATA
1 TATTATTTACTATTTATTTTCATA
13880863 TATTATGTTACTA-TTATTTTCATTA
1 TATTAT-TTACTATTTATTTTCA-TA
13880888 TATT
1 TATT
13880892 TTTCCCTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTATTTACTATTTATTTTCATA
Found at i:13881296 original size:8 final size:8
Alignment explanation
Indices: 13881285--13881340 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
13881275 ATTTTTTCCT
13881285 TTTTTTAA
1 TTTTTTAA
*
13881293 TTTTTT-T
1 TTTTTTAA
*
13881300 TTCTTTTATT
1 TT-TTTTA-A
*
13881310 TGTTTTTAT
1 T-TTTTTAA
13881319 TTTTTTAA
1 TTTTTTAA
13881327 TTTTTTAA
1 TTTTTTAA
13881335 TTTTTT
1 TTTTTT
13881341 TGTTTTCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 2 0.05
8 30 0.71
9 2 0.05
10 7 0.17
11 1 0.02
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTTAA
Found at i:13881296 original size:9 final size:9
Alignment explanation
Indices: 13881284--13881341 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
13881274 AATTTTTTCC
13881284 TTTTTTTAA
1 TTTTTTTAA
13881293 TTTTTTT--
1 TTTTTTTAA
*
13881300 TTCTTTT-A
1 TTTTTTTAA
*
13881308 TTTGTTTTTA
1 TTT-TTTTAA
13881318 TTTTTTTAA
1 TTTTTTTAA
13881327 -TTTTTTAA
1 TTTTTTTAA
13881335 TTTTTTT
1 TTTTTTT
13881342 GTTTTCTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
7 6 0.14
8 10 0.24
9 22 0.52
10 4 0.10
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:13881346 original size:16 final size:15
Alignment explanation
Indices: 13881296--13881356 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
13881286 TTTTTAATTT
*
13881296 TTTTTTCTTTTATTTG
1 TTTTTTATTTT-TTTG
*
13881312 -TTTTTATTTTTTTAA
1 TTTTTTATTTTTTT-G
13881327 TTTTTTAATTTTTTTG
1 TTTTTT-ATTTTTTTG
13881343 TTTTCTT-TTTTTTT
1 TTTT-TTATTTTTTT
13881357 TTGAGGAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 3 0.08
15 16 0.42
16 9 0.24
17 10 0.26
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.84
Consensus pattern (15 bp):
TTTTTTATTTTTTTG
Found at i:13881501 original size:34 final size:31
Alignment explanation
Indices: 13881426--13881504 Score: 95
Period size: 34 Copynumber: 2.4 Consensus size: 31
13881416 GTTCTAGCTG
13881426 AACTGGGCTTAAATTTTCATTGGTGCCAAAA
1 AACTGGGCTTAAATTTTCATTGGTGCCAAAA
* *
13881457 AATCTGGGCTTAAATTTTTCATTGGGTGCTAACTA
1 AA-CTGGGCTTAAA-TTTTCATT-GGTGCCAA-AA
*
13881492 AACTAGGCTTAAA
1 AACTGGGCTTAAA
13881505 ACTTGGGTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 2 0.05
32 11 0.27
33 8 0.20
34 17 0.41
35 3 0.07
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (31 bp):
AACTGGGCTTAAATTTTCATTGGTGCCAAAA
Found at i:13881695 original size:22 final size:22
Alignment explanation
Indices: 13881670--13881804 Score: 110
Period size: 22 Copynumber: 6.1 Consensus size: 22
13881660 TACAGTTTTG
13881670 TAGCTAATTTGGGCTTACGTGC
1 TAGCTAATTTGGGCTTACGTGC
* *
13881692 TAGCTAATTTGAGCTTATGTGC
1 TAGCTAATTTGGGCTTACGTGC
* **
13881714 TAGCTAATTTGGGCTTGCAAGC
1 TAGCTAATTTGGGCTTACGTGC
* * * * *
13881736 TAACTTATATAGGCTTACATGGC
1 TAGCTAATTTGGGCTTACGT-GC
* **
13881759 -AGCTAATATGGGCTTGTGTGC
1 TAGCTAATTTGGGCTTACGTGC
* **
13881780 CAGCTAATTTAAGCTTACGTGC
1 TAGCTAATTTGGGCTTACGTGC
13881802 TAG
1 TAG
13881805 AAAAATTAGG
Statistics
Matches: 86, Mismatches: 25, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
21 2 0.02
22 82 0.95
23 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (22 bp):
TAGCTAATTTGGGCTTACGTGC
Found at i:13887371 original size:76 final size:76
Alignment explanation
Indices: 13887279--13887431 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
13887269 ATTGATATAA
13887279 AGTATCTGCTAGTAAGGGCCTAACTTTATTGACTCTCTTCATTCTCCATGCAAGGTACCCTTTTG
1 AGTATCTGCTAGTAAGGGCCTAACTTTATTGACTCTCTTCATTCTCCATGCAAGGTACCCTTTTG
13887344 TGATATTATCT
66 TGATATTATCT
*
13887355 AGTATTTGCTAGTAAGGGCCTAACTTTATTGACTCTCTTCATTCTCCATGCAAGGTACCCTTTTG
1 AGTATCTGCTAGTAAGGGCCTAACTTTATTGACTCTCTTCATTCTCCATGCAAGGTACCCTTTTG
13887420 TGATATTATCT
66 TGATATTATCT
13887431 A
1 A
13887432 TATATCTAGC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (76 bp):
AGTATCTGCTAGTAAGGGCCTAACTTTATTGACTCTCTTCATTCTCCATGCAAGGTACCCTTTTG
TGATATTATCT
Found at i:13888850 original size:145 final size:146
Alignment explanation
Indices: 13888658--13888949 Score: 523
Period size: 146 Copynumber: 2.0 Consensus size: 146
13888648 TTGACCCAAA
*
13888658 ACAAATATCCTCTATTAAAATGTAATGCCTATATGATGTATGCAAAAAATTAAAGACTAAC-AAA
1 ACAAATACCCTCTATTAAAATGTAATGCCTATATGATGTATGCAAAAAATTAAAGACTAACAAAA
*
13888722 AAAATGAATCAATAATCCAAAACAAATAAATAGTAGAAATAGCAAAACAACCATATAATACAACA
66 AAAATGAATCAATAATCCAAAACAAATAAATAATAGAAATAGCAAAACAACCATATAATACAACA
13888787 AAATAACAGAATACAT
131 AAATAACAGAATACAT
13888803 ACAAATACCCTCTATTAAAATGTAATGCCTATATGATGTATGCAAAAAATTAAAGACTAACAAAA
1 ACAAATACCCTCTATTAAAATGTAATGCCTATATGATGTATGCAAAAAATTAAAGACTAACAAAA
** *
13888868 AAAATGAATCAATAATCCAAAACAAATAAATAATAGAAATAGCAAAGTAACCATATAATATAACA
66 AAAATGAATCAATAATCCAAAACAAATAAATAATAGAAATAGCAAAACAACCATATAATACAACA
*
13888933 AAATAACATAATACAT
131 AAATAACAGAATACAT
13888949 A
1 A
13888950 TAGTATCCTA
Statistics
Matches: 140, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
145 60 0.43
146 80 0.57
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (146 bp):
ACAAATACCCTCTATTAAAATGTAATGCCTATATGATGTATGCAAAAAATTAAAGACTAACAAAA
AAAATGAATCAATAATCCAAAACAAATAAATAATAGAAATAGCAAAACAACCATATAATACAACA
AAATAACAGAATACAT
Found at i:13890659 original size:13 final size:13
Alignment explanation
Indices: 13890641--13890676 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
13890631 TTGGGTTTTG
*
13890641 TTTAGGGTTTCAT
1 TTTAGGGTTTCAC
13890654 TTTAGGGTTTCAC
1 TTTAGGGTTTCAC
*
13890667 CTTAGGGTTT
1 TTTAGGGTTT
13890677 TAAGAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.11, G:0.25, T:0.50
Consensus pattern (13 bp):
TTTAGGGTTTCAC
Found at i:13892580 original size:9 final size:10
Alignment explanation
Indices: 13892555--13892579 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13892545 CAAGTTTTTA
13892555 TTTTTTCATT
1 TTTTTTCATT
13892565 TTTTTTCATT
1 TTTTTTCATT
13892575 TTTTT
1 TTTTT
13892580 CTGTGAGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:13892622 original size:11 final size:11
Alignment explanation
Indices: 13892606--13892634 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13892596 TTCTCAATAT
13892606 TTATTTATTTA
1 TTATTTATTTA
13892617 TTATTTATTTA
1 TTATTTATTTA
13892628 TT-TTTAT
1 TTATTTAT
13892635 ACTATGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:13899879 original size:161 final size:161
Alignment explanation
Indices: 13899601--13900403 Score: 727
Period size: 161 Copynumber: 5.0 Consensus size: 161
13899591 AACTTCAATT
* ** * * *
13899601 ATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAATCTA-AACAATAGCTGC
1 ATTTGGACAAGTTTAATAACATGTATTGGAGCTATCTAAACTATTAAA-ATAGAACAATAACTGC
* * * * *
13899665 AAATTTGCGTTTTTG-CTTTGTGACAG-CACAAGAAGTCCTAAATAGACATAAACTGCAACTTAT
65 AAATTTGCATTTTTGCCTTT-TAACAGTCACAAAAAGTCCTAAACAAACATAAACTGCAACTT-T
* * *
13899728 TTATGCATATCAAGTGTGGGAATCAAGTTCAAAA
128 TCATGCATATCAAGTGTGGAAATCAAGTTCAACA
** *
13899762 ATTTAAACAAGTTTAATAACATGTATTGGAGCTATCTAAACTATTAAAATAGAA-ATATAATTGC
1 ATTTGGACAAGTTTAATAACATGTATTGGAGCTATCTAAACTATTAAAATAGAACA-ATAACTGC
* * * * * *
13899826 AAAATTGCATTTTTCCCCTTTAAC-GTCACAAAAAGTCCTAAACAGATATAAACTGTAACTTTCT
65 AAATTTGCATTTTTGCCTTTTAACAGTCACAAAAAGTCCTAAACAAACATAAACTGCAACTTT-T
* * *
13899890 CATACATATCAAGAGTGGAAA-CAAAGTTCAATA
129 CATGCATATCAAGTGTGGAAATC-AAGTTCAACA
* * * * *
13899923 TTTTGGGCAAGTTTAATATCATGTATTGGAGCAATCTAAACTAGTAAAATAGAACAATAACTGCA
1 ATTTGGACAAGTTTAATAACATGTATTGGAGCTATCTAAACTATTAAAATAGAACAATAACTGCA
* * * ** * *
13899988 AATTTACATTTTTGCCTTTTGACAG-CATAAAAAGTCCTAAGTAAACGTAAA-TCGTAACTTTTC
66 AATTTGCATTTTTGCCTTTTAACAGTCACAAAAAGTCCTAAACAAACATAAACT-GCAACTTTTC
* * * * *
13900051 GTAG-ATATCAA-TCATGCAAACCAAGTTCAACC
130 AT-GCATATCAAGT-GTGGAAATCAAGTTCAACA
* * *
13900083 ATTCT-GACAAATTTAATATCATGTATTGGAGCTATCTAAACTATTAAAATAGAACAATAATTGC
1 ATT-TGGACAAGTTTAATAACATGTATTGGAGCTATCTAAACTATTAAAATAGAACAATAACTGC
* * * * * ** **
13900147 AATTTTGCAATTTTGCTTTTTAA-TGGCATTAAAAGTCCTAAACAAACATAAGTTGCAACTTTCT
65 AAATTTGCATTTTTGCCTTTTAACAGTCACAAAAAGTCCTAAACAAACATAAACTGCAACTTT-T
* *
13900211 CATGCATATCAAATGTGGAAAAT-AAGTTCAACC
129 CATGCATATCAAGTGTGG-AAATCAAGTTCAACA
* * ** * * * *
13900244 ATTCGGACAAGTTCAATAACATGTATTATAGCTATCTAAACTACTAAAATAGAATAATAGCTACA
1 ATTTGGACAAGTTTAATAACATGTATTGGAGCTATCTAAACTATTAAAATAGAACAATAACTGCA
* * *
13900309 AATTTGCATTTTTTGCCGTTTAACGGT-AGAAAAAGTCCTAAACAAACATAAACTGCAACTTATT
66 AATTTGCA-TTTTTGCCTTTTAACAGTCACAAAAAGTCCTAAACAAACATAAACTGCAACTT-TT
* **
13900373 CATGCATATTAAG-CAGGATAATCAAGTTCAA
129 CATGCATATCAAGTGTGGA-AATCAAGTTCAA
13900404 ATGTCCAAAA
Statistics
Matches: 521, Mismatches: 96, Indels: 49
0.78 0.14 0.07
Matches are distributed among these distances:
159 1 0.00
160 134 0.26
161 314 0.60
162 70 0.13
163 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (161 bp):
ATTTGGACAAGTTTAATAACATGTATTGGAGCTATCTAAACTATTAAAATAGAACAATAACTGCA
AATTTGCATTTTTGCCTTTTAACAGTCACAAAAAGTCCTAAACAAACATAAACTGCAACTTTTCA
TGCATATCAAGTGTGGAAATCAAGTTCAACA
Found at i:13900209 original size:321 final size:322
Alignment explanation
Indices: 13899594--13900381 Score: 857
Period size: 321 Copynumber: 2.4 Consensus size: 322
13899584 AAACACTAAC
* *
13899594 TTCAAT-TATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACT-GTTAAATCTA-AAC
1 TTCAATAT-TTTGGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTAG-TAAA-ATAGAAC
* * *
13899656 AATAGCTGCAAATTTGCGTTTTTG-CTTTGTGACAGCACAAGAAGTCCTAAATAGACATAAACTG
63 AATAGCTGCAAATTTGCATTTTTGCCTTT-TGACAGCACAAAAAGTCCTAAATAAACATAAACTG
* ** * *
13899720 CAACTTATTTATGCATATCAAGTGTGGGAATCAAGTTCAAAAATTTAAACAAGTTTAATAACATG
127 CAACTTATTTATGCATATCAAGTATGCAAACCAAGTTCAAAAATTTAAACAAATTTAATAACATG
*
13899785 TATTGGAGCTATCTAAACTATTAAAATAGAAATATAATTGCAAAATTGCATTTTTCCCCTTTAAC
192 TATTGGAGCTATCTAAACTATTAAAATAGAAATATAATTGCAAAATTGCAATTTTCCCCTTTAAC
* * * *
13899850 GTCACAAAAAGTCCTAAACAGATATAAACTGTAACTTTCTCATACATATCAAGA-GTGGAAACA-
257 GGCACAAAAAGTCCTAAACAAACATAAACTGCAACTTTCTCATACATATCAA-ATGTGGAAA-AT
13899913 AAG
320 AAG
* ** *
13899916 TTCAATATTTTGGGCAAGTTTAATATCATGTATTGGAGCAATCTAAACTAGTAAAATAGAACAAT
1 TTCAATATTTTGGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTAGTAAAATAGAACAAT
* * * * * *
13899981 AACTGCAAATTTACATTTTTGCCTTTTGACAGCATAAAAAGTCCTAAGTAAACGTAAA-TCGTAA
66 AGCTGCAAATTTGCATTTTTGCCTTTTGACAGCACAAAAAGTCCTAAATAAACATAAACT-GCAA
** * *
13900045 CTT-TTCGTA-G-ATATCAA-TCATGCAAACCAAGTTCAACCATTCT-GACAAATTTAATATCAT
130 CTTATT--TATGCATATCAAGT-ATGCAAACCAAGTTCAAAAATT-TAAACAAATTTAATAACAT
** * **
13900105 GTATTGGAGCTATCTAAACTATTAAAATAGAACA-ATAATTGCAATTTTGCAATTTTGCTTTTTA
191 GTATTGGAGCTATCTAAACTATTAAAATAGAA-ATATAATTGCAAAATTGCAATTTTCCCCTTTA
* ** ** *
13900169 ATGGCATTAAAAGTCCTAAACAAACATAAGTTGCAACTTTCTCATGCATATCAAATGTGGAAAAT
255 ACGGCACAAAAAGTCCTAAACAAACATAAACTGCAACTTTCTCATACATATCAAATGTGGAAAAT
13900234 AAG
320 AAG
* * * * * * *
13900237 TTCAACCA-TTCGGACAAGTTCAATAACATGTATTATAGCTATCTAAACTACTAAAATAGAATAA
1 TTCAA-TATTTTGGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTAGTAAAATAGAACAA
* * * * * * *
13900301 TAGCTACAAATTTGCATTTTTTGCCGTTTAACGGTAGAAAAAGTCCTAAACAAACATAAACTGCA
65 TAGCTGCAAATTTGCA-TTTTTGCCTTTTGACAGCACAAAAAGTCCTAAATAAACATAAACTGCA
*
13900366 ACTTATTCATGCATAT
129 ACTTATTTATGCATAT
13900382 TAAGCAGGAT
Statistics
Matches: 386, Mismatches: 62, Indels: 35
0.80 0.13 0.07
Matches are distributed among these distances:
320 3 0.01
321 218 0.56
322 150 0.39
323 15 0.04
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (322 bp):
TTCAATATTTTGGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTAGTAAAATAGAACAAT
AGCTGCAAATTTGCATTTTTGCCTTTTGACAGCACAAAAAGTCCTAAATAAACATAAACTGCAAC
TTATTTATGCATATCAAGTATGCAAACCAAGTTCAAAAATTTAAACAAATTTAATAACATGTATT
GGAGCTATCTAAACTATTAAAATAGAAATATAATTGCAAAATTGCAATTTTCCCCTTTAACGGCA
CAAAAAGTCCTAAACAAACATAAACTGCAACTTTCTCATACATATCAAATGTGGAAAATAAG
Found at i:13900967 original size:19 final size:19
Alignment explanation
Indices: 13900943--13900992 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
13900933 AACCCTAAAC
13900943 GAAACCCAAAATGCCAAGT
1 GAAACCCAAAATGCCAAGT
13900962 GAAACCCAAAATGCCAAGT
1 GAAACCCAAAATGCCAAGT
13900981 GAAACCCTAAAA
1 GAAACCC-AAAA
13900993 GACAAAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 26 0.87
20 4 0.13
ACGTcount: A:0.50, C:0.26, G:0.14, T:0.10
Consensus pattern (19 bp):
GAAACCCAAAATGCCAAGT
Found at i:13909369 original size:20 final size:21
Alignment explanation
Indices: 13909337--13909378 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
13909327 CTTTAATTTC
13909337 TGTTTTAAGTTAATTTGTTGT
1 TGTTTTAAGTTAATTTGTTGT
13909358 TGTTTT-AGTTAATTTGTTGT
1 TGTTTTAAGTTAATTTGTTGT
13909378 T
1 T
13909379 CATGCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.17, C:0.00, G:0.19, T:0.64
Consensus pattern (21 bp):
TGTTTTAAGTTAATTTGTTGT
Found at i:13914867 original size:61 final size:63
Alignment explanation
Indices: 13914750--13914871 Score: 185
Period size: 61 Copynumber: 2.0 Consensus size: 63
13914740 TCAAATTGAC
* * *
13914750 ATGATATGGCTGTTTAAAATGTGTATCTGATAATGACTTTGTTCTGGAACATAGGATCCTATG
1 ATGATATGGCTGTTTAAAATATGTATCTGAGAATGAATTTGTTCTGGAACATAGGATCCTATG
* *
13914813 ATGATATGGTTGTTTAAAATATGTAT-T-AGAATGAATTTGTTTTGGAACATAGGATCCTA
1 ATGATATGGCTGTTTAAAATATGTATCTGAGAATGAATTTGTTCTGGAACATAGGATCCTA
13914872 ATTAGTCTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 29 0.54
62 1 0.02
63 24 0.44
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (63 bp):
ATGATATGGCTGTTTAAAATATGTATCTGAGAATGAATTTGTTCTGGAACATAGGATCCTATG
Found at i:13918865 original size:10 final size:10
Alignment explanation
Indices: 13918850--13918878 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
13918840 AAAAGGATAT
13918850 GTGCATGGAA
1 GTGCATGGAA
13918860 GTGCATGGAA
1 GTGCATGGAA
13918870 GTGCATGGA
1 GTGCATGGA
13918879 TGAGCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.41, T:0.21
Consensus pattern (10 bp):
GTGCATGGAA
Found at i:13920280 original size:24 final size:27
Alignment explanation
Indices: 13920232--13920280 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
13920222 CTTCCATTAT
13920232 TTGCATTTAATTTTTGTTTTTATTTTA
1 TTGCATTTAATTTTTGTTTTTATTTTA
13920259 TTGCA-TTAA-TTTT-TTTTTATTT
1 TTGCATTTAATTTTTGTTTTTATTT
13920281 CAAGTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 4 0.18
26 4 0.18
27 5 0.23
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.71
Consensus pattern (27 bp):
TTGCATTTAATTTTTGTTTTTATTTTA
Found at i:13923667 original size:16 final size:17
Alignment explanation
Indices: 13923633--13923669 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13923623 AATAAAAAAT
13923633 AAAAAATAAAAAAAGGA
1 AAAAAATAAAAAAAGGA
*
13923650 AAAAAATAAAAGAA-GA
1 AAAAAATAAAAAAAGGA
13923666 AAAA
1 AAAA
13923670 GTTGTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAATAAAAAAAGGA
Found at i:13923691 original size:11 final size:11
Alignment explanation
Indices: 13923677--13923706 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13923667 AAAGTTGTGA
13923677 AAAAGAAAAGG
1 AAAAGAAAAGG
13923688 AAAAGAAAAGG
1 AAAAGAAAAGG
13923699 AAAA-AAAA
1 AAAAGAAAA
13923707 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGG
Found at i:13923726 original size:41 final size:42
Alignment explanation
Indices: 13923681--13923759 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
13923671 TTGTGAAAAA
* *
13923681 GAAAAGGAAAAGAAAAGGAAAAAAA-AAA-AAAATAAAGTGGT
1 GAAAAAGAAAAG-AAAGGAAAAAAAGAAAGAAAAGAAAGTGGT
*
13923722 GAAAAAGCAAAGAAAGGAAAAAAAGAAAGAAAAGAAAG
1 GAAAAAGAAAAGAAAGGAAAAAAAGAAAGAAAAGAAAG
13923760 AAAAAGTGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 12 0.36
41 13 0.39
42 8 0.24
ACGTcount: A:0.72, C:0.01, G:0.23, T:0.04
Consensus pattern (42 bp):
GAAAAAGAAAAGAAAGGAAAAAAAGAAAGAAAAGAAAGTGGT
Found at i:13923748 original size:13 final size:13
Alignment explanation
Indices: 13923724--13923762 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
13923714 AAAGTGGTGA
13923724 AAAAGCAAAGAAAGG
1 AAAAG-AAAGAAA-G
13923739 AAAA-AAAGAAAG
1 AAAAGAAAGAAAG
13923751 AAAAGAAAGAAA
1 AAAAGAAAGAAA
13923763 AAGTGGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.22
13 14 0.61
15 4 0.17
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:13932562 original size:16 final size:17
Alignment explanation
Indices: 13932541--13932573 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13932531 TCTAAGGACT
13932541 AAAGAG-AAGAAAATAA
1 AAAGAGAAAGAAAATAA
13932557 AAAGAGAAAGAAAATAA
1 AAAGAGAAAGAAAATAA
13932574 TGGGATGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (17 bp):
AAAGAGAAAGAAAATAA
Found at i:13934413 original size:13 final size:12
Alignment explanation
Indices: 13934385--13934414 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
13934375 GAAAGGTAGT
13934385 AAAAAATGAAGG
1 AAAAAATGAAGG
13934397 AAAAAATGAAGG
1 AAAAAATGAAGG
13934409 AAAAAA
1 AAAAAA
13934415 GGAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (12 bp):
AAAAAATGAAGG
Found at i:13942451 original size:37 final size:37
Alignment explanation
Indices: 13942403--13942484 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
13942393 AAACCTTGAA
13942403 CCTAAACCCTAAACCAACCCCAAAAGCCTAACCAAAC
1 CCTAAACCCTAAACCAACCCCAAAAGCCTAACCAAAC
13942440 CCTAAACCCTAAACCAACCCCAAAAGCCTAACCAAAC
1 CCTAAACCCTAAACCAACCCCAAAAGCCTAACCAAAC
13942477 CCTAAACC
1 CCTAAACC
13942485 AGCCTTCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.45, C:0.44, G:0.02, T:0.09
Consensus pattern (37 bp):
CCTAAACCCTAAACCAACCCCAAAAGCCTAACCAAAC
Found at i:13942478 original size:19 final size:18
Alignment explanation
Indices: 13942414--13942474 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
13942404 CTAAACCCTA
13942414 AACCAACCCCAAAAGCCT
1 AACCAACCCCAAAAGCCT
* * *
13942432 AACCAAACCCTAAACCCT
1 AACCAACCCCAAAAGCCT
13942450 AAACCAACCCCAAAAGCCT
1 -AACCAACCCCAAAAGCCT
13942469 AACCAA
1 AACCAA
13942475 ACCCTAAACC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
18 21 0.58
19 15 0.42
ACGTcount: A:0.48, C:0.43, G:0.03, T:0.07
Consensus pattern (18 bp):
AACCAACCCCAAAAGCCT
Found at i:13942603 original size:18 final size:19
Alignment explanation
Indices: 13942566--13942610 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
13942556 ACCTAAACAG
13942566 ACCCTAAACCAACCCTTAA
1 ACCCTAAACCAACCCTTAA
* *
13942585 ACCCTAACCCTACCC-TAA
1 ACCCTAAACCAACCCTTAA
13942603 ACCCTAAA
1 ACCCTAAA
13942611 ATAAGCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (19 bp):
ACCCTAAACCAACCCTTAA
Found at i:13942779 original size:22 final size:22
Alignment explanation
Indices: 13942751--13942797 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
13942741 TTTAATTGTA
13942751 ATGCATAT-ATTTCATCATG-TTC
1 ATGCATATCATTT-A-CATGTTTC
13942773 ATGCATATCATTTACATGTTTC
1 ATGCATATCATTTACATGTTTC
13942795 ATG
1 ATG
13942798 AATAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 15 0.65
23 4 0.17
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.45
Consensus pattern (22 bp):
ATGCATATCATTTACATGTTTC
Found at i:13943628 original size:14 final size:13
Alignment explanation
Indices: 13943603--13943636 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
13943593 ATGGTATTAA
13943603 TTAATTTTTAATC
1 TTAATTTTTAATC
*
13943616 TTAATTCTTTAATT
1 TTAATT-TTTAATC
13943630 TTAATTT
1 TTAATTT
13943637 GCTTACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (13 bp):
TTAATTTTTAATC
Found at i:13944284 original size:29 final size:29
Alignment explanation
Indices: 13944248--13944312 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
13944238 TTTTCATTTG
*
13944248 ATTT-TTTATTAAAATTTTTAATTTGCTA
1 ATTTGTTTATTAAAATTGTTAATTTGCTA
*
13944276 ATTTGTTTATTAAAATTGTTATTTTGCTA
1 ATTTGTTTATTAAAATTGTTAATTTGCTA
13944305 ATTTGTTT
1 ATTTGTTT
13944313 CTATTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (29 bp):
ATTTGTTTATTAAAATTGTTAATTTGCTA
Found at i:13944407 original size:7 final size:7
Alignment explanation
Indices: 13944395--13944469 Score: 70
Period size: 7 Copynumber: 11.0 Consensus size: 7
13944385 TTGTTTTAGG
13944395 AAAAAGA
1 AAAAAGA
13944402 AAAAAG-
1 AAAAAGA
*
13944408 -TAAAGA
1 AAAAAGA
13944414 AATAATAGA
1 AA-AA-AGA
13944423 AAAAAGA
1 AAAAAGA
13944430 AAAAAGA
1 AAAAAGA
13944437 AAAAA-A
1 AAAAAGA
13944443 AAAGAA-A
1 AAA-AAGA
*
13944450 GAAAAG-
1 AAAAAGA
13944456 AAAAAGA
1 AAAAAGA
13944463 AAAAAGA
1 AAAAAGA
13944470 GGGAAGTTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
5 4 0.07
6 11 0.19
7 33 0.58
8 4 0.07
9 5 0.09
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (7 bp):
AAAAAGA
Found at i:13944440 original size:34 final size:33
Alignment explanation
Indices: 13944395--13944469 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
13944385 TTGTTTTAGG
* * *
13944395 AAAAAGAAAAAAGTAAAGAAATAATAGAAAAAAGA
1 AAAAAGAAAAAA-AAAAGAAAGAAAAG-AAAAAGA
13944430 AAAAAGAAAAAAAAAAGAAAGAAAAGAAAAAGA
1 AAAAAGAAAAAAAAAAGAAAGAAAAGAAAAAGA
13944463 AAAAAGA
1 AAAAAGA
13944470 GGGAAGTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 14 0.38
34 11 0.30
35 12 0.32
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (33 bp):
AAAAAGAAAAAAAAAAGAAAGAAAAGAAAAAGA
Found at i:13944445 original size:11 final size:11
Alignment explanation
Indices: 13944422--13944467 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
13944412 GAAATAATAG
13944422 AAAAAAGAAAA
1 AAAAAAGAAAA
13944433 AAGAAAA-AAAA
1 AA-AAAAGAAAA
*
13944444 AAGAAAGAAAA
1 AAAAAAGAAAA
*
13944455 GAAAAAGAAAA
1 AAAAAAGAAAA
13944466 AA
1 AA
13944468 GAGGGAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 3 0.10
11 22 0.76
12 4 0.14
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:13944454 original size:27 final size:26
Alignment explanation
Indices: 13944395--13944467 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 26
13944385 TTGTTTTAGG
*
13944395 AAAAAGAAAAAAGTAAAGAAATAATAGA
1 AAAAAGAAAAAAG-AAA-AAATAAAAGA
13944423 AAAAAGAAAAAAGAAAAAA-AAAAGA
1 AAAAAGAAAAAAGAAAAAATAAAAGA
13944448 AAGAAA-AGAAAAAGAAAAAA
1 AA-AAAGA-AAAAAGAAAAAA
13944468 GAGGGAAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
25 8 0.19
26 18 0.43
27 3 0.07
28 13 0.31
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (26 bp):
AAAAAGAAAAAAGAAAAAATAAAAGA
Found at i:13945826 original size:38 final size:39
Alignment explanation
Indices: 13945750--13945834 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 39
13945740 CTTGGAGATA
13945750 ACATTCAAGTTAGAGTTAGGAAGACACACTGATAACATC
1 ACATTCAAGTTAGAGTTAGGAAGACACACTGATAACATC
* * * * *
13945789 ACATTTAAGTTAGA-TTAGGAAGATACGCTGCTGACATC
1 ACATTCAAGTTAGAGTTAGGAAGACACACTGATAACATC
13945827 AC-TTCAAG
1 ACATTCAAG
13945835 ATATCTAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
37 5 0.12
38 22 0.55
39 13 0.32
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (39 bp):
ACATTCAAGTTAGAGTTAGGAAGACACACTGATAACATC
Found at i:13957288 original size:50 final size:50
Alignment explanation
Indices: 13957217--13957368 Score: 209
Period size: 50 Copynumber: 3.0 Consensus size: 50
13957207 CAACCAACAA
*
13957217 CTTTTCAAGATGAGATCTTTTAAAGCTTT-AAAGCCTTTGTTTAGGAGGAG
1 CTTTTCAAGATGAGATCTTTTAAAG-TTTCAAAGCCTTTGTTTAGGAAGAG
* * * *
13957267 TTTTTCAAAGATAAGAT-TTTTAAAGTTTCAAAACCTTTGTTTATGAAGAG
1 CTTTTC-AAGATGAGATCTTTTAAAGTTTCAAAGCCTTTGTTTAGGAAGAG
* *
13957317 CTTTTCAAGATGAGATCTTTTAAAATTTCAAAGCCTTTGTTTAGGAATAG
1 CTTTTCAAGATGAGATCTTTTAAAGTTTCAAAGCCTTTGTTTAGGAAGAG
13957367 CT
1 CT
13957369 CTAGATCATG
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
49 12 0.14
50 67 0.76
51 9 0.10
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (50 bp):
CTTTTCAAGATGAGATCTTTTAAAGTTTCAAAGCCTTTGTTTAGGAAGAG
Found at i:13958878 original size:18 final size:18
Alignment explanation
Indices: 13958852--13958957 Score: 72
Period size: 18 Copynumber: 5.6 Consensus size: 18
13958842 AATCTTAAAC
*
13958852 AAACTCTAAACCAACCCT
1 AAACCCTAAACCAACCCT
*
13958870 AAACCCTAAACCTAGCCC-
1 AAACCCTAAACC-AACCCT
*
13958888 AAACCCTAAACTAAACCCT
1 AAACCCTAAAC-CAACCCT
* *
13958907 AAACCTAGCCCAAACCCTAA-ACT
1 AAA-C---CCTAAA-CC-AACCCT
*
13958930 AAACCCTAAACCAAGCCT
1 AAACCCTAAACCAACCCT
13958948 AAACCCTAAA
1 AAACCCTAAA
13958958 AAATCCTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
17 2 0.03
18 40 0.58
19 12 0.17
20 1 0.01
22 1 0.01
23 10 0.14
24 3 0.04
ACGTcount: A:0.45, C:0.39, G:0.03, T:0.13
Consensus pattern (18 bp):
AAACCCTAAACCAACCCT
Found at i:13958903 original size:12 final size:12
Alignment explanation
Indices: 13958888--13958940 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 12
13958878 AACCTAGCCC
13958888 AAACCCTAAACT
1 AAACCCTAAACT
13958900 AAACCCTAAACCT
1 AAACCCTAAA-CT
13958913 AGCCCAAACCCTAAACT
1 -----AAACCCTAAACT
13958930 AAACCCTAAAC
1 AAACCCTAAAC
13958941 CAAGCCTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
12 21 0.60
13 2 0.06
17 2 0.06
18 10 0.29
ACGTcount: A:0.47, C:0.38, G:0.02, T:0.13
Consensus pattern (12 bp):
AAACCCTAAACT
Found at i:13958904 original size:30 final size:30
Alignment explanation
Indices: 13958868--13958969 Score: 163
Period size: 30 Copynumber: 3.5 Consensus size: 30
13958858 TAAACCAACC
13958868 CTAAACCCTAAACCTAGCCCAAACCCTAAA
1 CTAAACCCTAAACCTAGCCCAAACCCTAAA
13958898 CTAAACCCTAAACCTAGCCCAAACCCTAAA
1 CTAAACCCTAAACCTAGCCCAAACCCTAAA
* *
13958928 CTAAACCCTAAACCAAGCCTAAACCCTAAA
1 CTAAACCCTAAACCTAGCCCAAACCCTAAA
*
13958958 --AAATCCTAAACC
1 CTAAACCCTAAACC
13958970 GAACCTAAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 11 0.16
30 58 0.84
ACGTcount: A:0.45, C:0.38, G:0.03, T:0.14
Consensus pattern (30 bp):
CTAAACCCTAAACCTAGCCCAAACCCTAAA
Found at i:13958967 original size:17 final size:18
Alignment explanation
Indices: 13958928--13958969 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13958918 AAACCCTAAA
*
13958928 CTAAACCCTAAACCAAGC
1 CTAAACCCTAAACAAAGC
*
13958946 CTAAACCCTAAA-AAATC
1 CTAAACCCTAAACAAAGC
13958963 CTAAACC
1 CTAAACC
13958970 GAACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.14
Consensus pattern (18 bp):
CTAAACCCTAAACAAAGC
Found at i:13959131 original size:30 final size:30
Alignment explanation
Indices: 13959060--13959119 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
13959050 CCAAATTGTT
13959060 AAACCTTAAACCAACCCCTAAACCCTAAAC
1 AAACCTTAAACCAACCCCTAAACCCTAAAC
**
13959090 AAACCTTAAACCAACCTTTAAACCCTAAAC
1 AAACCTTAAACCAACCCCTAAACCCTAAAC
13959120 TGAAACTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (30 bp):
AAACCTTAAACCAACCCCTAAACCCTAAAC
Found at i:13959233 original size:29 final size:29
Alignment explanation
Indices: 13959179--13959235 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
13959169 AATTAGACCT
*
13959179 AAACCCTAAACCAACCTTGAACCCTAAAC
1 AAACCCTAAACCAACCTTAAACCCTAAAC
* *
13959208 AAACCCTAACCCAAGCC-TAAATCCTAAA
1 AAACCCTAAACCAA-CCTTAAACCCTAAA
13959236 TGATGCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.46, C:0.37, G:0.04, T:0.14
Consensus pattern (29 bp):
AAACCCTAAACCAACCTTAAACCCTAAAC
Found at i:13964041 original size:41 final size:39
Alignment explanation
Indices: 13963944--13964041 Score: 92
Period size: 42 Copynumber: 2.4 Consensus size: 39
13963934 GTAAAAAAAC
* * *
13963944 TTATTATTTTTATTATTATTTAAAAAAAACTTTTTACCT
1 TTATTATTTTTATTTTTATTTAAAAAAAACTTATTACAT
*
13963983 TTATT-TTATGATCATTTTTATTTAAAAAAAAACTTATTA-AT
1 TTATTATT-T--TTATTTTTATTT-AAAAAAAACTTATTACAT
13964024 ATTATTATCTTTTATTTT
1 -TTATTAT-TTTTATTTT
13964042 ACTATCATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
38 2 0.04
39 6 0.13
41 17 0.36
42 19 0.40
43 2 0.04
44 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (39 bp):
TTATTATTTTTATTTTTATTTAAAAAAAACTTATTACAT
Found at i:13965693 original size:10 final size:10
Alignment explanation
Indices: 13965675--13965771 Score: 84
Period size: 10 Copynumber: 10.2 Consensus size: 10
13965665 TTTACATGTT
13965675 TTATT-TTTA
1 TTATTATTTA
*
13965684 CTATTATTTA
1 TTATTATTTA
13965694 TTATTATTTA
1 TTATTATTTA
13965704 TTATTA-TTA
1 TTATTATTTA
13965713 TTA-T-TTTA
1 TTATTATTTA
13965721 TTATTATTATA
1 TTATTATT-TA
*
13965732 TTATTACTATA
1 TTATTA-TTTA
13965743 TTATT-TTT-
1 TTATTATTTA
*
13965751 TAATT-TTTAA
1 TTATTATTT-A
13965761 TT-TTATTTA
1 TTATTATTTA
13965770 TT
1 TT
13965772 TGGTTTTCGT
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
8 14 0.19
9 18 0.25
10 25 0.34
11 15 0.21
12 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTATTTA
Found at i:13965693 original size:16 final size:16
Alignment explanation
Indices: 13965661--13965750 Score: 53
Period size: 16 Copynumber: 5.4 Consensus size: 16
13965651 GGCCAATTTG
13965661 TATTTTTAC-ATGT-TT
1 TATTTTTACTAT-TATT
13965676 TATTTTTACTATTATT
1 TATTTTTACTATTATT
* *
13965692 TATTATTATTTATTATTAT
1 TATTTTTA-CTATTA-T-T
*
13965711 TATTATTTTATTATTATT
1 TA-T-TTTTACTATTATT
*
13965729 ATATTATTACTA-TA-T
1 -TATTTTTACTATTATT
13965744 TATTTTT
1 TATTTTT
13965751 TAATTTTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
14 6 0.10
15 11 0.18
16 13 0.21
17 11 0.18
18 3 0.05
19 6 0.10
20 7 0.11
21 4 0.07
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (16 bp):
TATTTTTACTATTATT
Found at i:13965697 original size:3 final size:3
Alignment explanation
Indices: 13965675--13965747 Score: 80
Period size: 3 Copynumber: 24.7 Consensus size: 3
13965665 TTTACATGTT
* *
13965675 TTA TTT TTA CTA TTA TTTA TTA TTA TTTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
13965721 TTA TTA TTA -TA TTA TTA CTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13965748 TTTTAATTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.10
3 48 0.80
4 6 0.10
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13965721 original size:14 final size:14
Alignment explanation
Indices: 13965685--13965767 Score: 82
Period size: 14 Copynumber: 5.9 Consensus size: 14
13965675 TTATTTTTAC
13965685 TATTA-TTTATTAT
1 TATTATTTTATTAT
*
13965698 TATT-TATTATTAT
1 TATTATTTTATTAT
13965711 TATTATTTTATTAT
1 TATTATTTTATTAT
*
13965725 TATTATATTATTACT
1 TATTATTTTATTA-T
13965740 ATATTATTTT-TTAAT
1 -TATTATTTTATT-AT
*
13965755 TTTTAATTTTATT
1 TATT-ATTTTATT
13965768 TATTTGGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
13 15 0.26
14 23 0.40
15 9 0.16
16 11 0.19
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTATTTTATTAT
Found at i:13965723 original size:11 final size:11
Alignment explanation
Indices: 13965679--13965767 Score: 72
Period size: 11 Copynumber: 7.6 Consensus size: 11
13965669 CATGTTTTAT
*
13965679 TTTTACTATTA
1 TTTTATTATTA
13965690 TTTATTATTATTTA
1 -TT-TTATTA-TTA
13965704 TTATTATTATTA
1 TT-TTATTATTA
13965716 TTTTATTATTA
1 TTTTATTATTA
*
13965727 TTATATTATTA
1 TTTTATTATTA
* *
13965738 CTATATTATT-
1 TTTTATTATTA
*
13965748 TTTTAATTTTTAA
1 TTTT-ATTATT-A
13965761 TTTTATT
1 TTTTATT
13965768 TATTTGGTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
10 2 0.03
11 33 0.50
12 10 0.15
13 18 0.27
14 3 0.05
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:13982254 original size:19 final size:19
Alignment explanation
Indices: 13982213--13982255 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13982203 AGCCAAATAA
*
13982213 TTAAAATACTCTTGAGTTC
1 TTAAAATAATCTTGAGTTC
*
13982232 TTAAAATATATCTTG-GTTG
1 TTAAAATA-ATCTTGAGTTC
13982251 TTAAA
1 TTAAA
13982256 TGATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (19 bp):
TTAAAATAATCTTGAGTTC
Found at i:13982487 original size:22 final size:21
Alignment explanation
Indices: 13982459--13982504 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 21
13982449 TGTTGATAAA
13982459 TTTGACATTTTTATGAACTTTT
1 TTTGACATTTTTATGAA-TTTT
13982481 TTTGACATTTTTATGAATTTT
1 TTTGACATTTTTATGAATTTT
13982502 TTT
1 TTT
13982505 CTTTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.63
Consensus pattern (21 bp):
TTTGACATTTTTATGAATTTT
Found at i:13985999 original size:14 final size:14
Alignment explanation
Indices: 13985980--13986009 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13985970 GAGCAAGTAG
*
13985980 TATTTATGCATTAT
1 TATTTATACATTAT
13985994 TATTTATACATTAT
1 TATTTATACATTAT
13986008 TA
1 TA
13986010 CATGTGTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (14 bp):
TATTTATACATTAT
Found at i:13994667 original size:18 final size:18
Alignment explanation
Indices: 13994623--13994663 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
13994613 TATATCATTG
13994623 TGTATGCTTAAGATTAAC
1 TGTATGCTTAAGATTAAC
13994641 TGTATGCTTAAGATTAAC
1 TGTATGCTTAAGATTAAC
13994659 T-TATG
1 TGTATG
13994664 GCTTGTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (18 bp):
TGTATGCTTAAGATTAAC
Found at i:13996171 original size:15 final size:15
Alignment explanation
Indices: 13996151--13996179 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13996141 TAATTGGTAT
13996151 TTAATCTTAATTTTC
1 TTAATCTTAATTTTC
13996166 TTAATCTTAATTTT
1 TTAATCTTAATTTT
13996180 GTTTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATCTTAATTTTC
Found at i:13997598 original size:30 final size:30
Alignment explanation
Indices: 13997562--13997622 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
13997552 GTACATGCTT
13997562 TGTATCCCATGCATAAAATATGTTAGTGTA
1 TGTATCCCATGCATAAAATATGTTAGTGTA
13997592 TGTATCCCATGCATAAAATATGTTAGTGTA
1 TGTATCCCATGCATAAAATATGTTAGTGTA
13997622 T
1 T
13997623 CTCATATAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (30 bp):
TGTATCCCATGCATAAAATATGTTAGTGTA
Found at i:13998617 original size:31 final size:31
Alignment explanation
Indices: 13998582--13998644 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
13998572 AATATAGCCT
13998582 TTTCAAAAAGAAATATACGTTTTCTAAATGG
1 TTTCAAAAAGAAATATACGTTTTCTAAATGG
* *
13998613 TTTCAAAAGGAAATATTCGTTTTCTAAATGG
1 TTTCAAAAAGAAATATACGTTTTCTAAATGG
13998644 T
1 T
13998645 GATAATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCAAAAAGAAATATACGTTTTCTAAATGG
Found at i:14008588 original size:21 final size:21
Alignment explanation
Indices: 14008559--14008613 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
14008549 CTATGCATAG
*
14008559 GATCGATCAAGTATGTTACCT
1 GATCAATCAAGTATGTTACCT
14008580 GATCAATCAAGTATGTTACCT
1 GATCAATCAAGTATGTTACCT
14008601 GATCAATCAAGTA
1 GATCAATCAAGTA
14008614 GGTGTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (21 bp):
GATCAATCAAGTATGTTACCT
Found at i:14009608 original size:17 final size:17
Alignment explanation
Indices: 14009556--14009612 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
14009546 AAATATTTCC
14009556 AAAAAAAAAGAATAAAATA
1 AAAAAAAAAG-AT-AAATA
*
14009575 AAACAAAAATG-TAAATA
1 AAA-AAAAAAGATAAATA
*
14009592 AAAAAAAAAGATGAATA
1 AAAAAAAAAGATAAATA
14009609 AAAA
1 AAAA
14009613 TGAAAGAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.18
17 17 0.52
18 1 0.03
19 3 0.09
20 6 0.18
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAGATAAATA
Found at i:14009876 original size:11 final size:10
Alignment explanation
Indices: 14009860--14009889 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
14009850 TCCTTTATTT
14009860 AAAAAAAAGAC
1 AAAAAAAA-AC
14009871 AAAAAAAAAC
1 AAAAAAAAAC
14009881 AAAAAAAAA
1 AAAAAAAAA
14009890 TACACGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:14014252 original size:16 final size:17
Alignment explanation
Indices: 14014226--14014257 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14014216 GGAGAGACAA
14014226 ACAACAAGCAATCAAAG
1 ACAACAAGCAATCAAAG
14014243 ACAA-AAGCAATCAAA
1 ACAACAAGCAATCAAA
14014258 CACATATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.62, C:0.22, G:0.09, T:0.06
Consensus pattern (17 bp):
ACAACAAGCAATCAAAG
Found at i:14016533 original size:30 final size:29
Alignment explanation
Indices: 14016477--14016539 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
14016467 GATAATAAAA
14016477 TTAATTTGATTTGATATACTAAAATTAATT
1 TTAATTTGATTTGATATACTAAAATT-ATT
*
14016507 TTAA-TTGATTTGATCAT-CTATTAATTATT
1 TTAATTTGATTTGAT-ATACTA-AAATTATT
14016536 TTAA
1 TTAA
14016540 AATAAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (29 bp):
TTAATTTGATTTGATATACTAAAATTATT
Found at i:14018001 original size:55 final size:55
Alignment explanation
Indices: 14017890--14018001 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
14017880 AAATATTAAC
** * * *
14017890 TAAAAATTAAATGTAAAGATTAAATAAAGCAAGCCATTTTATATTGTGAATGAAA
1 TAAAAATTAAAAATAAAGATAAAATAAAGCAAGCCATTTTATATTATGAATAAAA
* *
14017945 TAAAAATTAAAAATAAAGATAAAATAAAGCAAGCTATTTTATATTATGTATAAAA
1 TAAAAATTAAAAATAAAGATAAAATAAAGCAAGCCATTTTATATTATGAATAAAA
14018000 TA
1 TA
14018002 TTTATGTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.31
Consensus pattern (55 bp):
TAAAAATTAAAAATAAAGATAAAATAAAGCAAGCCATTTTATATTATGAATAAAA
Found at i:14019233 original size:20 final size:21
Alignment explanation
Indices: 14019190--14019242 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
14019180 TAAATATAAA
*
14019190 AAATAGAATAAATTTATAACT
1 AAATAGAATAAATATATAACT
* *
14019211 AAATA-AATAAATATATGAGT
1 AAATAGAATAAATATATAACT
14019231 AAATAGCAATAA
1 AAATAG-AATAA
14019243 CACAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 17 0.63
21 5 0.19
22 5 0.19
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (21 bp):
AAATAGAATAAATATATAACT
Found at i:14025144 original size:72 final size:72
Alignment explanation
Indices: 14024998--14025132 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 72
14024988 AAACTTGACC
* * * * *
14024998 TTTGTTAAAATTTTAGAATTTTGAAAATATTATTTCAACATCCACTAAATTTTTTATTTTAAAAA
1 TTTGTTAAAATTGTAAAATTTTGAAAATATAATTTCAACACCCACTAAATTTTTTATCTTAAAAA
14025063 CATAATT
66 CATAATT
* *
14025070 TTTGTTAAAATTGTAAAATTTT-AAAA-ATAAGTTTCAACACCCATTACA-TTTTTATCTTAAAA
1 TTTGTTAAAATTGTAAAATTTTGAAAATATAA-TTTCAACACCCACTAAATTTTTTATCTTAAAA
14025132 A
65 A
14025133 TATGGTCTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 17 0.31
71 18 0.33
72 20 0.36
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.44
Consensus pattern (72 bp):
TTTGTTAAAATTGTAAAATTTTGAAAATATAATTTCAACACCCACTAAATTTTTTATCTTAAAAA
CATAATT
Found at i:14025181 original size:110 final size:112
Alignment explanation
Indices: 14025047--14025253 Score: 251
Period size: 111 Copynumber: 1.9 Consensus size: 112
14025037 ATCCACTAAA
**
14025047 TTTTTTATTTTAAAAACATAATTTTTGTTAAAATT-GTAAAATTTTAAAAATA-AGTTTCAACAC
1 TTTTTTATTTTAAAAACATAATTTTTGTTAAAATTCG-AAAATTGCAAAAATATAGTTTCAACAC
* *
14025110 CCATTACATTTTTATCTTAAAAATATGGTCTTTTTCAACATCTGTTACC
65 CCACTACATTTTTATATTAAAAATATGGT-TTTTTCAACATCTGTTACC
* * * * * * *
14025159 TTTTTT-TTTT-AAAATATGATTTTTGTTAACATTCGAGAATTGCGAAAATATAGTTTCAATATC
1 TTTTTTATTTTAAAAACATAATTTTTGTTAAAATTCGAAAATTGCAAAAATATAGTTTCAACACC
* *
14025222 CACTACATTTTTATATTTAAAATGTGGTTTTT
66 CACTACATTTTTATATTAAAAATATGGTTTTT
14025254 CTTAAAATAT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
110 35 0.44
111 39 0.49
112 6 0.08
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (112 bp):
TTTTTTATTTTAAAAACATAATTTTTGTTAAAATTCGAAAATTGCAAAAATATAGTTTCAACACC
CACTACATTTTTATATTAAAAATATGGTTTTTTCAACATCTGTTACC
Found at i:14025596 original size:72 final size:72
Alignment explanation
Indices: 14025484--14025859 Score: 283
Period size: 72 Copynumber: 5.2 Consensus size: 72
14025474 ATTTACTACG
* * * * * * * * *
14025484 TTTTTATCTAAAAAATATGATATTTGTTAAGATTCCAAAATTTTGCAAATATAGTTTCAACATCC
1 TTTTTATCTTAAAAACATAATCTTTATTAAAATTTCAAAATTTTGAAAATATAGTTTCAATATCC
14025549 ACTATAT
66 ACTATAT
* ** ** * *
14025556 TTTTTATCTTAGAAATGTGGTCTTTATTAAAATTTCAAAATTTTGAAAATAAAATTTCAATATCC
1 TTTTTATCTTAAAAACATAATCTTTATTAAAATTTCAAAATTTTGAAAATATAGTTTCAATATCC
* *
14025621 ACTGTAG
66 ACTATAT
* * * * * *
14025628 TCTTTATCTTAAAAACATAATCTTTGTTAAAATTTTATACTTTTAAAAATATAGTTTCAATATCC
1 TTTTTATCTTAAAAACATAATCTTTATTAAAATTTCAAAATTTTGAAAATATAGTTTCAATATCC
* *
14025693 ACCATGT
66 ACTATAT
* * * * * ** *
14025700 CTTTTTAACTAAAAAAAACATAGTTTTTATT-AAATTTAAAAAATTTCAAAAATAAAGTTTCAAT
1 -TTTTTATCT--TAAAAACATAATCTTTATTAAAATTT-CAAAATTTTGAAAATATAGTTTCAAT
*
14025764 ATCCACTAT-C
62 ATCCACTATAT
* * * * *
14025774 TTTTTATATTAAAAACATGATCTTTGTTAAAATTT-AAGAATTTTGAAAATATAATTTCAACATC
1 TTTTTATCTTAAAAACATAATCTTTATTAAAATTTCAA-AATTTTGAAAATATAGTTTCAATATC
* *
14025838 TACTACGA-
65 CACTA-TAT
*
14025846 TTTTTATCCTAAAA
1 TTTTTATCTTAAAA
14025860 TAGCAATACT
Statistics
Matches: 236, Mismatches: 60, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
70 2 0.01
71 39 0.17
72 131 0.56
73 14 0.06
74 6 0.03
75 44 0.19
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (72 bp):
TTTTTATCTTAAAAACATAATCTTTATTAAAATTTCAAAATTTTGAAAATATAGTTTCAATATCC
ACTATAT
Found at i:14025859 original size:146 final size:147
Alignment explanation
Indices: 14025578--14025851 Score: 347
Period size: 146 Copynumber: 1.9 Consensus size: 147
14025568 AAATGTGGTC
* ** * * *
14025578 TTTATTAAAATTTCAAAATTTTGAAAATAAAATTTCAATATCCACTGTAGTCTTTATCTTAAAAA
1 TTTATTAAAATTTAAAAATTTCAAAAATAAAATTTCAATATCCACTATACTCTTTATATTAAAAA
* * * * * * *
14025643 CATAATCTTTGTTAAAATTTTATACTTTTAAAAATATAGTTTCAATATCCACCATGTCTTTTTAA
66 CATAATCTTTGTTAAAATTTAAGAATTTTAAAAATATAATTTCAACATCCACCACGTATTTTTAA
14025708 CTAAAAAAAACATAGTT
131 CTAAAAAAAACATAGTT
* *
14025725 TTTATT-AAATTTAAAAAATTTCAAAAATAAAGTTTCAATATCCACTAT-CTTTTTATATTAAAA
1 TTTATTAAAATTT-AAAAATTTCAAAAATAAAATTTCAATATCCACTATACTCTTTATATTAAAA
* * * *
14025788 ACATGATCTTTGTTAAAATTTAAGAATTTTGAAAATATAATTTCAACATCTACTACG-ATTTTTA
65 ACATAATCTTTGTTAAAATTTAAGAATTTTAAAAATATAATTTCAACATCCACCACGTATTTTTA
14025852 TCCTAAAATA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
145 6 0.06
146 65 0.61
147 36 0.34
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (147 bp):
TTTATTAAAATTTAAAAATTTCAAAAATAAAATTTCAATATCCACTATACTCTTTATATTAAAAA
CATAATCTTTGTTAAAATTTAAGAATTTTAAAAATATAATTTCAACATCCACCACGTATTTTTAA
CTAAAAAAAACATAGTT
Found at i:14030728 original size:17 final size:18
Alignment explanation
Indices: 14030689--14030728 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14030679 TTTCTATGAA
*
14030689 AATAGACACTATGTTTGT
1 AATAAACACTATGTTTGT
14030707 AATAAACACTATGTTT-T
1 AATAAACACTATGTTTGT
14030724 AATAA
1 AATAA
14030729 GTGAAGACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (18 bp):
AATAAACACTATGTTTGT
Found at i:14034082 original size:19 final size:19
Alignment explanation
Indices: 14034060--14034122 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
14034050 GGGTGGTTTG
* *
14034060 GGGTTTAATGGAAGATTTA
1 GGGTTTCATGGATGATTTA
* *
14034079 GGGTTTCATGGATGGTTGA
1 GGGTTTCATGGATGATTTA
*
14034098 GGGTTTCATGGGTGATTTA
1 GGGTTTCATGGATGATTTA
14034117 GGGTTT
1 GGGTTT
14034123 GGGGTTTGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.19, C:0.03, G:0.38, T:0.40
Consensus pattern (19 bp):
GGGTTTCATGGATGATTTA
Found at i:14034084 original size:38 final size:39
Alignment explanation
Indices: 14034041--14034124 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 39
14034031 GGTTTGGCTT
*
14034041 GGGTTTGGA-GGGTGGTTTG-GGGTTTAATGGAAGATTTA
1 GGGTTTGGATGGATGG-TTGAGGGTTTAATGGAAGATTTA
* * **
14034079 GGGTTT-CATGGATGGTTGAGGGTTTCATGGGTGATTTA
1 GGGTTTGGATGGATGGTTGAGGGTTTAATGGAAGATTTA
14034117 GGGTTTGG
1 GGGTTTGG
14034125 GGTTTGGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
37 4 0.11
38 33 0.89
ACGTcount: A:0.15, C:0.02, G:0.44, T:0.38
Consensus pattern (39 bp):
GGGTTTGGATGGATGGTTGAGGGTTTAATGGAAGATTTA
Found at i:14034151 original size:21 final size:21
Alignment explanation
Indices: 14034112--14034151 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14034102 TTCATGGGTG
**
14034112 ATTTAGGGTTTGGGGTTTGGA
1 ATTTAGGGTTTGGAATTTGGA
*
14034133 ATTTAGGGTTTGTAATTTG
1 ATTTAGGGTTTGGAATTTG
14034152 TGGTTTCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.47
Consensus pattern (21 bp):
ATTTAGGGTTTGGAATTTGGA
Found at i:14034253 original size:22 final size:22
Alignment explanation
Indices: 14034228--14034300 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
14034218 TTGATGCATG
14034228 TGACAAATAACAAAAATGCCAT
1 TGACAAATAACAAAAATGCCAT
* *
14034250 TGACAAA-AATGTAAATAATGATGCAT
1 TGACAAATAA--CAAA-AATG--CCAT
*
14034276 GTGACAAATAACAAAAATGCTAT
1 -TGACAAATAACAAAAATGCCAT
14034299 TG
1 TG
14034301 GTAAAAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
21 2 0.05
22 9 0.23
23 5 0.13
24 4 0.10
25 4 0.10
26 6 0.15
27 7 0.18
28 2 0.05
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (22 bp):
TGACAAATAACAAAAATGCCAT
Found at i:14034258 original size:49 final size:49
Alignment explanation
Indices: 14034194--14034325 Score: 219
Period size: 49 Copynumber: 2.7 Consensus size: 49
14034184 AATTACAAGG
14034194 ATGCCATTGGTAAAAATGTAAATATTGATGCATGTGACAAATAACAAAA
1 ATGCCATTGGTAAAAATGTAAATATTGATGCATGTGACAAATAACAAAA
** *
14034243 ATGCCATTGACAAAAATGTAAATAATGATGCATGTGACAAATAACAAAA
1 ATGCCATTGGTAAAAATGTAAATATTGATGCATGTGACAAATAACAAAA
* *
14034292 ATGCTATTGGTAAAAATGTAAATATTAATGCATG
1 ATGCCATTGGTAAAAATGTAAATATTGATGCATG
14034326 AAAAATACAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.27
Consensus pattern (49 bp):
ATGCCATTGGTAAAAATGTAAATATTGATGCATGTGACAAATAACAAAA
Done.