Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 51 of 410
Found at i:13326229 original size:24 final size:24
Alignment explanation
Indices: 13326202--13326305 Score: 169
Period size: 23 Copynumber: 4.4 Consensus size: 24
13326192 ACTGGAACCT
13326202 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
13326226 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
13326251 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13326274 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13326297 AGCCCTTTT
1 AGCCCTTTT
13326306 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
23 47 0.61
24 24 0.31
25 6 0.08
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:13326419 original size:20 final size:20
Alignment explanation
Indices: 13326351--13326421 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
13326341 GCATTTATGA
* * *
13326351 ACATCTCATATGCATATAAT
1 ACATATCATGTGCATATCAT
*
13326371 ACATATCAGGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
13326391 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
13326411 ACATATCATGT
1 ACATATCATGT
13326422 TTATCAAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:13330519 original size:24 final size:23
Alignment explanation
Indices: 13330484--13330528 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
13330474 ATGTTCCCCT
13330484 GCTTTAATTCAAGAAACTCTTTGC
1 GCTTTAATTCAAGAAA-TCTTTGC
*
13330508 GCTTCTAA-TCAATAAATCTTT
1 GCTT-TAATTCAAGAAATCTTT
13330529 CACTGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 11 0.58
25 3 0.16
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (23 bp):
GCTTTAATTCAAGAAATCTTTGC
Found at i:13335044 original size:43 final size:44
Alignment explanation
Indices: 13334966--13335111 Score: 121
Period size: 43 Copynumber: 3.4 Consensus size: 44
13334956 TTTTGATATG
* * * *
13334966 TGATTTA-GTGTAAGACCACGTCTGGGA-AGTTGGCATCG-ATT
1 TGATTTACGTGTAAGACCATGTCTAGGACAGTCGGCATCGTATA
*
13335007 TGAGATTTACGTGCAAGACCATGTCT-GGACA-TCGGCATCGTATA
1 T--GATTTACGTGTAAGACCATGTCTAGGACAGTCGGCATCGTATA
* *
13335051 TGATTT-CGTGTAAGACCCTGTCTAGGACAGT-GGCATTG-ATA
1 TGATTTACGTGTAAGACCATGTCTAGGACAGTCGGCATCGTATA
*
13335092 TGCGA-TTACATGTAAGACCA
1 T--GATTTACGTGTAAGACCA
13335112 CATCTGGGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
41 20 0.23
42 18 0.21
43 30 0.35
44 18 0.21
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGTCTAGGACAGTCGGCATCGTATA
Found at i:13335093 original size:41 final size:40
Alignment explanation
Indices: 13334966--13335093 Score: 109
Period size: 41 Copynumber: 3.0 Consensus size: 40
13334956 TTTTGATATG
* *
13334966 TGATTTAGTGTAAGACCAC-GTCTGGGA-AGTTGGCATCGATT
1 TGATTTCGTGTAAGACC-CTGTCT-GGACAG-TGGCATCGATA
* *
13335007 TGAGATTTACGTGCAAGACCATGTCTGGACA-TCGGCATCGTATA
1 T--GATTT-CGTGTAAGACCCTGTCTGGACAGT-GGCATCG-ATA
*
13335051 TGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATTGATA
1 TGATTTCGTGTAAGACCCTGTCT-GGACAGTGGCATCGATA
13335092 TG
1 TG
13335094 CGATTACATG
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
41 21 0.30
42 17 0.24
43 16 0.23
44 17 0.24
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (40 bp):
TGATTTCGTGTAAGACCCTGTCTGGACAGTGGCATCGATA
Found at i:13339342 original size:37 final size:37
Alignment explanation
Indices: 13339292--13339364 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
13339282 TACGAAGTCT
13339292 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
*
13339329 TACCCGGACATAATCTCCACACGTAGTCATTGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
13339365 TCACCCGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
Found at i:13339512 original size:49 final size:49
Alignment explanation
Indices: 13339445--13339699 Score: 474
Period size: 49 Copynumber: 5.2 Consensus size: 49
13339435 TTTACCACAT
*
13339445 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
13339494 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
13339543 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
13339592 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
13339641 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
13339690 ATATATATAC
1 ATATATATAC
13339700 TTAATGGCCT
Statistics
Matches: 200, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 200 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:13339752 original size:123 final size:124
Alignment explanation
Indices: 13339581--13339822 Score: 432
Period size: 123 Copynumber: 2.0 Consensus size: 124
13339571 TCGGCCATTA
*
13339581 GGCCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATATACATCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
13339646 TATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACTTAAT
66 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTAAT
* *
13339705 GGCCTTATCACATATATATACA-CTTCACATTCATCACGTTGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATATACATCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
13339769 TATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
66 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
13339823 ACTTTCACAT
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
123 91 0.81
124 22 0.19
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (124 bp):
GGCCTTATCACATATATATACATCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTAAT
Found at i:13339753 original size:74 final size:75
Alignment explanation
Indices: 13339630--13339773 Score: 272
Period size: 74 Copynumber: 1.9 Consensus size: 75
13339620 TCGGCCATTA
13339630 GGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA
13339695 TATACTTAAT
66 TATACTTAAT
*
13339705 GGCCTTATCACATATATATACAC-TTCACATTCATCACGTTGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA
13339769 TATAC
66 TATAC
13339774 ATTTTCACAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 45 0.66
75 23 0.34
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.34
Consensus pattern (75 bp):
GGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA
TATACTTAAT
Found at i:13339800 original size:49 final size:49
Alignment explanation
Indices: 13339705--13339916 Score: 381
Period size: 49 Copynumber: 4.3 Consensus size: 49
13339695 TATACTTAAT
* *
13339705 GGCCTTATCACATATATATACAC-TTCACATTCATCACGTTGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
*
13339753 GGCCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
*
13339802 GGCCTTATCACATATATATACACTTTCACATTCGTCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
13339851 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
13339900 GGCCTTATCACATATAT
1 GGCCTTATCACATATAT
13339917 TATTATGTAC
Statistics
Matches: 157, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
48 22 0.14
49 135 0.86
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.33
Consensus pattern (49 bp):
GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:13339819 original size:172 final size:173
Alignment explanation
Indices: 13339532--13339871 Score: 637
Period size: 172 Copynumber: 2.0 Consensus size: 173
13339522 TCGGCCATTA
13339532 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
13339597 TATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
66 TATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
13339662 CATCACGTCGGCCATTAGGCCTTATCACATATATATACTTAAT
131 CATCACATCGGCCATTAGGCCTTATCACATATATATACTTAAT
* *
13339705 GGCCTTATCACATATATATACAC-TTCACATTCATCACGTTGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
13339769 TATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
66 TATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
13339834 CGTCACATCGGCCATTAGGCCTTATCACATATATATAC
131 CATCACATCGGCCATTAGGCCTTATCACATATATATAC
13339872 ACTTTCACAT
Statistics
Matches: 163, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
172 140 0.86
173 23 0.14
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (173 bp):
GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
TATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATATACTTAAT
Found at i:13339896 original size:221 final size:222
Alignment explanation
Indices: 13339483--13339916 Score: 798
Period size: 221 Copynumber: 2.0 Consensus size: 222
13339473 TCGGCCATTA
*
13339483 GGCCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATATACATCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
13339548 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACATT
66 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
13339613 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATT
131 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
13339678 AGGCCTTATCACATATATATACTTAAT
196 AGGCCTTATCACATATATATACTTAAT
* *
13339705 GGCCTTATCACATATATATACA-CTTCACATTCATCACGTTGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATATACATCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
13339769 TATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
66 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
13339834 CGTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
131 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
13339899 AGGCCTTATCACATATAT
196 AGGCCTTATCACATATAT
13339917 TATTATGTAC
Statistics
Matches: 205, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
221 183 0.89
222 22 0.11
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (222 bp):
GGCCTTATCACATATATATACATCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
AGGCCTTATCACATATATATACTTAAT
Found at i:13351691 original size:21 final size:22
Alignment explanation
Indices: 13351667--13351710 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
13351657 AATTGTATTT
* *
13351667 AGCATGGAATGATT-TGTTACG
1 AGCATGAAATGATTGAGTTACG
13351688 AGCATGAAATGATTGAGTTACG
1 AGCATGAAATGATTGAGTTACG
13351710 A
1 A
13351711 CGTCCGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (22 bp):
AGCATGAAATGATTGAGTTACG
Found at i:13351872 original size:43 final size:42
Alignment explanation
Indices: 13351775--13351936 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 42
13351765 ATAGGATTTT
* * *
13351775 GATATGTGATTTA-GTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATG-GATTTACATGTAAGACCATGTCTGGGAC-ATGGCATC
*
13351818 GATTTGAGATTTACATGTAAGACCATGTCTGGGACATCGGCATC
1 GATATG-GATTTACATGTAAGACCATGTCTGGGACAT-GGCATC
* * * * *
13351862 GTATAT-GATTT-CGTGCAAGACCTTGTCTGGGATAGTGGCATT
1 G-ATATGGATTTACATGTAAGACCATGTCTGGGACA-TGGCATC
13351904 GATATGCGA-TTACATGTAAGACCATGTCTGGGA
1 GATATG-GATTTACATGTAAGACCATGTCTGGGA
13351937 TGTTGGTATT
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 4 0.04
42 27 0.28
43 38 0.39
44 26 0.27
45 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (42 bp):
GATATGGATTTACATGTAAGACCATGTCTGGGACATGGCATC
Found at i:13351937 original size:43 final size:42
Alignment explanation
Indices: 13351789--13351937 Score: 142
Period size: 42 Copynumber: 3.5 Consensus size: 42
13351779 TGTGATTTAG
* * *
13351789 TGTAAGACCACGTCTGGGA-CGTTGGCATCGATTTGAGATTTACA
1 TGTAAGACCATGTCTGGGATAG-TGGCATCGATATG-GA-TTACA
* * *
13351833 TGTAAGACCATGTCTGGGACA-TCGGCATCGTATAT-GATTTCG
1 TGTAAGACCATGTCTGGGATAGT-GGCATCG-ATATGGATTACA
* * *
13351875 TGCAAGACCTTGTCTGGGATAGTGGCATTGATATGCGATTACA
1 TGTAAGACCATGTCTGGGATAGTGGCATCGATATG-GATTACA
13351918 TGTAAGACCATGTCTGGGAT
1 TGTAAGACCATGTCTGGGAT
13351938 GTTGGTATTG
Statistics
Matches: 86, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
41 4 0.05
42 27 0.31
43 27 0.31
44 25 0.29
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGATAGTGGCATCGATATGGATTACA
Found at i:13367867 original size:28 final size:29
Alignment explanation
Indices: 13367800--13367900 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
13367790 ATAGTGAATC
*
13367800 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
13367829 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
13367857 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
13367887 CGCACACTTAGTGC
1 CGCACACTTAGTGC
13367901 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:13368379 original size:2 final size:2
Alignment explanation
Indices: 13368372--13368399 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13368362 TAATGGCCGA
13368372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13368400 GTACAATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13375688 original size:28 final size:29
Alignment explanation
Indices: 13375621--13375721 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
13375611 ATAGTGAATC
*
13375621 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
13375650 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
13375678 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
13375708 CGCACACTTAGTGC
1 CGCACACTTAGTGC
13375722 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:13378089 original size:6 final size:6
Alignment explanation
Indices: 13378073--13378107 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
13378063 GGAATACACC
* *
13378073 GTAACA ATAACA GTAACA GTAACA GTAATA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
13378108 GGTACACAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.20
Consensus pattern (6 bp):
GTAACA
Found at i:13379095 original size:8 final size:8
Alignment explanation
Indices: 13379084--13379126 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
13379074 CTTTTATGCT
13379084 TTATTATA
1 TTATTATA
13379092 TTATTATA
1 TTATTATA
13379100 TTATTATA
1 TTATTATA
*
13379108 ATA-TATA
1 TTATTATA
13379115 TTATATATA
1 TTAT-TATA
13379124 TTA
1 TTA
13379127 AATATCTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 6 0.19
8 18 0.58
9 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:13382021 original size:46 final size:45
Alignment explanation
Indices: 13381954--13382252 Score: 373
Period size: 46 Copynumber: 6.7 Consensus size: 45
13381944 GCAACCTGTG
13381954 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA-A
13382000 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG----
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
* *
13382038 TGTAAGACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA-A
**
13382084 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGA-AAA
* *
13382130 TGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
* *
13382175 -GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
* * *
13382220 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 T--GTAAGACCATGGTTGAAAGATACCATGGCA
13382253 TCACGTCAAA
Statistics
Matches: 228, Mismatches: 11, Indels: 28
0.85 0.04 0.10
Matches are distributed among these distances:
38 35 0.15
41 2 0.01
43 2 0.01
44 1 0.00
45 6 0.03
46 180 0.79
47 1 0.00
48 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (45 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAA
Found at i:13382038 original size:84 final size:84
Alignment explanation
Indices: 13381903--13382208 Score: 454
Period size: 84 Copynumber: 3.5 Consensus size: 84
13381893 AGTGTGCTCT
* *
13381903 CTGATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
13381968 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
13381987 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATAGT
1 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
13382052 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
13382071 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
13382136 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* *
13382163 GTGACATGAAA-A-GAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATATG--TAAGACCATGGTTGAAAGATACCATGGCAAC
13382209 ATGACAGAAA
Statistics
Matches: 204, Mismatches: 8, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
84 127 0.62
89 1 0.00
90 1 0.00
91 1 0.00
92 74 0.36
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:13382558 original size:23 final size:25
Alignment explanation
Indices: 13382513--13382559 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13382503 AATAAATATA
*
13382513 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
13382538 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
13382560 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:13390114 original size:17 final size:17
Alignment explanation
Indices: 13390088--13390120 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13390078 AGACTGTGAC
*
13390088 CTTGGTATCTTTCTTGG
1 CTTGGCATCTTTCTTGG
13390105 CTTGGCATCTTTCTTG
1 CTTGGCATCTTTCTTG
13390121 CTCACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.21, G:0.21, T:0.52
Consensus pattern (17 bp):
CTTGGCATCTTTCTTGG
Found at i:13397932 original size:23 final size:22
Alignment explanation
Indices: 13397902--13397972 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 22
13397892 TACAGAACTT
* *
13397902 ACCACAAAGACATTGTAGGATAC
1 ACCACAAAG-CATTGCAGAATAC
13397925 ACCACAAAGGCATTGCAGAATAC
1 ACCACAAA-GCATTGCAGAATAC
13397948 ACCACATAAGCATTGCAGAATAC
1 ACCACA-AAGCATTGCAGAATAC
13397971 AC
1 AC
13397973 TATAAAAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.44, C:0.25, G:0.15, T:0.15
Consensus pattern (22 bp):
ACCACAAAGCATTGCAGAATAC
Found at i:13398070 original size:46 final size:46
Alignment explanation
Indices: 13398028--13398267 Score: 257
Period size: 46 Copynumber: 5.2 Consensus size: 46
13398018 GTCATAAAAA
* * * *
13398028 CTTCATAGATTATGCTAAAAAAGCTCCACATAATACACCATAAAGG
1 CTTCATAGATTATGCCACAAAGGCTCCACAAAATACACCATAAAGG
* * *
13398074 CTACATAGATTATGCCACAAAGGCTCCACAAAATACACTAGAAAGG
1 CTTCATAGATTATGCCACAAAGGCTCCACAAAATACACCATAAAGG
* * **
13398120 CTTAATAGATTATGCCACAAAGGCTCCACACAATACGTCATAAAGG
1 CTTCATAGATTATGCCACAAAGGCTCCACAAAATACACCATAAAGG
* * * **
13398166 CATCATAGATTATGCCACAAAGGCTCCATAGAATATGCCATACAA-G
1 CTTCATAGATTATGCCACAAAGGCTCCACAAAATACACCATA-AAGG
* * * ***
13398212 CATCATAAATTATGCCACAAAGGCTCCATAAAATGTGCCATAAAGG
1 CTTCATAGATTATGCCACAAAGGCTCCACAAAATACACCATAAAGG
*
13398258 CATCATAGAT
1 CTTCATAGAT
13398268 AACCTATAAC
Statistics
Matches: 168, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
45 2 0.01
46 164 0.98
47 2 0.01
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (46 bp):
CTTCATAGATTATGCCACAAAGGCTCCACAAAATACACCATAAAGG
Found at i:13398096 original size:23 final size:23
Alignment explanation
Indices: 13398069--13398267 Score: 102
Period size: 23 Copynumber: 8.7 Consensus size: 23
13398059 AATACACCAT
13398069 AAAGGCTACATAGATTATGCCAC
1 AAAGGCTACATAGATTATGCCAC
* * * * ** * *
13398092 AAAGGCTCCACAAAATACACTAG
1 AAAGGCTACATAGATTATGCCAC
13398115 AAAGGCTTA-ATAGATTATGCCAC
1 AAAGGC-TACATAGATTATGCCAC
* * * * * * *
13398138 AAAGGCTCCACACAATACGTCAT
1 AAAGGCTACATAGATTATGCCAC
13398161 AAAGGC-ATCATAGATTATGCCAC
1 AAAGGCTA-CATAGATTATGCCAC
* * *
13398184 AAAGGCTCCATAGAATATGCCAT
1 AAAGGCTACATAGATTATGCCAC
*
13398207 ACAA-GC-ATCATAAATTATGCCAC
1 A-AAGGCTA-CATAGATTATGCCAC
* * * * *
13398230 AAAGGCTCCATAAAATGTGCCAT
1 AAAGGCTACATAGATTATGCCAC
13398253 AAAGGC-ATCATAGAT
1 AAAGGCTA-CATAGAT
13398268 AACCTATAAC
Statistics
Matches: 123, Mismatches: 44, Indels: 18
0.66 0.24 0.10
Matches are distributed among these distances:
22 3 0.02
23 117 0.95
24 3 0.02
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.21
Consensus pattern (23 bp):
AAAGGCTACATAGATTATGCCAC
Found at i:13398224 original size:92 final size:91
Alignment explanation
Indices: 13398002--13398267 Score: 291
Period size: 92 Copynumber: 2.9 Consensus size: 91
13397992 TAAACCAAAG
* * * * * * * *
13398002 AGGCTCCATCGAATATGTCATAAAAACTTCATAGATTATGCTAAAAAAGCTCCACATAATACACC
1 AGGCTCCATAGAATATGCCAT-AAAGCTTCATAGATTATGCCACAAAGGCTCCACAAAATACGCC
13398067 ATAAAGGC-TACATAGATTATGCCACAA
65 ATAAAGGCAT-CATAGATTATGCCACAA
* * ** * * * * *
13398094 AGGCTCCACAAAATACACTAGAAAGGCTTAATAGATTATGCCACAAAGGCTCCACACAATACGTC
1 AGGCTCCATAGAATATGCCATAAA-GCTTCATAGATTATGCCACAAAGGCTCCACAAAATACGCC
13398159 ATAAAGGCATCATAGATTATGCCACAA
65 ATAAAGGCATCATAGATTATGCCACAA
* * * **
13398186 AGGCTCCATAGAATATGCCATACAAGCATCATAAATTATGCCACAAAGGCTCCATAAAATGTGCC
1 AGGCTCCATAGAATATGCCATA-AAGCTTCATAGATTATGCCACAAAGGCTCCACAAAATACGCC
13398251 ATAAAGGCATCATAGAT
65 ATAAAGGCATCATAGAT
13398268 AACCTATAAC
Statistics
Matches: 141, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
91 3 0.02
92 135 0.96
93 3 0.02
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (91 bp):
AGGCTCCATAGAATATGCCATAAAGCTTCATAGATTATGCCACAAAGGCTCCACAAAATACGCCA
TAAAGGCATCATAGATTATGCCACAA
Found at i:13399743 original size:87 final size:87
Alignment explanation
Indices: 13399578--13399735 Score: 234
Period size: 87 Copynumber: 1.8 Consensus size: 87
13399568 GATGCTCATC
13399578 GACTATGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATGGTCACGACCATGAAATATG
1 GACTATGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATGGTCACGACCATGAAATATG
13399643 GAAAAGGATAGTTTTGACTATT
66 GAAAAGGATAGTTTTGACTATT
* * *
13399665 GACTATGAAGAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGG-CTTCGACCATCG-AAT
1 GACTATGAAAAGAGATGGTGACGACCATC-AACTATGAAAAGGGATGGTC-ACGACCAT-GAAAT
13399727 AT-GAAAAGG
63 ATGGAAAAGG
13399736 GGTAGTTTCG
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
86 8 0.12
87 54 0.83
88 3 0.05
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (87 bp):
GACTATGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATGGTCACGACCATGAAATATG
GAAAAGGATAGTTTTGACTATT
Found at i:13399745 original size:29 final size:29
Alignment explanation
Indices: 13399574--13399749 Score: 151
Period size: 29 Copynumber: 6.1 Consensus size: 29
13399564 TATCGATGCT
* * **
13399574 CATCGACTATGAAAAGAGATGGTGACGAC
1 CATCGAATATGAAAAGGGATGGTTTCGAC
**
13399603 CATC-AACTATGAAAAGGGATGGTCACGAC
1 CATCGAA-TATGAAAAGGGATGGTTTCGAC
* *
13399632 CAT-GAAATATGGAAAA-GGATAGTTTTGAC
1 CATCG-AATAT-GAAAAGGGATGGTTTCGAC
* * * * **
13399661 TATTGACTATGAAGAGGGATGGTGACGAC
1 CATCGAATATGAAAAGGGATGGTTTCGAC
*
13399690 CATCGAATATGAAAAGGGATGGCTTCGAC
1 CATCGAATATGAAAAGGGATGGTTTCGAC
* *
13399719 CATCGAATATGAAAAGGGGTAGTTTCGAC
1 CATCGAATATGAAAAGGGATGGTTTCGAC
13399748 CA
1 CA
13399750 ACGATTAAAG
Statistics
Matches: 117, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
28 5 0.04
29 104 0.89
30 8 0.07
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATGGTTTCGAC
Found at i:13403320 original size:38 final size:38
Alignment explanation
Indices: 13403261--13403423 Score: 241
Period size: 38 Copynumber: 4.4 Consensus size: 38
13403251 TCAATCATGC
*
13403261 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
13403300 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
13403338 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
13403369 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
13403407 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
13403424 ACTGTAAATG
Statistics
Matches: 113, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
38 68 0.60
39 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:13403326 original size:31 final size:31
Alignment explanation
Indices: 13403284--13403397 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
13403274 CCTTTTCATA
13403284 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
13403321 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
13403353 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
13403384 TTTCATGTTTCATA
1 TTTCATATTTCATA
13403398 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:13403395 original size:69 final size:69
Alignment explanation
Indices: 13403284--13403423 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
13403274 CCTTTTCATA
13403284 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
13403349 GCCT
66 GCCT
*
13403353 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
13403418 GCCT
66 GCCT
13403422 TT
1 TT
13403424 ACTGTAAATG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:13403660 original size:24 final size:24
Alignment explanation
Indices: 13403614--13403708 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
13403604 GCTTTATCAT
*
13403614 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
13403639 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
13403663 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
13403686 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13403709 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13403693 original size:47 final size:49
Alignment explanation
Indices: 13403614--13403707 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
13403604 GCTTTATCAT
*
13403614 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
13403663 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
13403708 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:13403784 original size:20 final size:20
Alignment explanation
Indices: 13403759--13403818 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
13403749 TATGATTACC
13403759 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
13403779 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
13403799 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
13403819 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:13403893 original size:25 final size:25
Alignment explanation
Indices: 13403861--13403908 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13403851 ATACATAAAC
* * *
13403861 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
13403886 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
13403909 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:13411433 original size:38 final size:38
Alignment explanation
Indices: 13411374--13411536 Score: 241
Period size: 38 Copynumber: 4.4 Consensus size: 38
13411364 TCAATCATGC
*
13411374 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
13411413 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
13411451 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
13411482 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
13411520 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
13411537 ACTGTAAACG
Statistics
Matches: 113, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
38 68 0.60
39 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:13411439 original size:31 final size:31
Alignment explanation
Indices: 13411397--13411510 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
13411387 CCTTTTCATA
13411397 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
13411434 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
13411466 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
13411497 TTTCATGTTTCATA
1 TTTCATATTTCATA
13411511 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:13411508 original size:69 final size:69
Alignment explanation
Indices: 13411397--13411536 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
13411387 CCTTTTCATA
13411397 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
13411462 GCCT
66 GCCT
*
13411466 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
13411531 GCCT
66 GCCT
13411535 TT
1 TT
13411537 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:13411774 original size:24 final size:24
Alignment explanation
Indices: 13411742--13411822 Score: 121
Period size: 23 Copynumber: 3.4 Consensus size: 24
13411732 CTAGAGGCCT
13411742 AGCCTCTTTTAATAACTGGGGCCA-A
1 AGCC-CTTTTAATAACTGGGG-CATA
*
13411767 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13411791 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13411814 AGCCCTTTT
1 AGCCCTTTT
13411823 TCACTTCCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.47
24 24 0.45
25 4 0.08
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:13411898 original size:20 final size:20
Alignment explanation
Indices: 13411873--13411932 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
13411863 TATGATTACC
13411873 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
13411893 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
*
13411913 TCATGTACATATCATACATA
1 TCATGTGCATATCATACATA
13411933 CCATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:13412007 original size:25 final size:25
Alignment explanation
Indices: 13411975--13412022 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13411965 ATACATAAAC
* * *
13411975 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
13412000 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
13412023 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:13418332 original size:27 final size:27
Alignment explanation
Indices: 13418302--13418466 Score: 168
Period size: 27 Copynumber: 6.1 Consensus size: 27
13418292 ACTAAAATGT
* ***
13418302 CCTCAAATTGTAAAATTACCAAAGTAC
1 CCTCAAATTATAAAATTACCATTTTAC
* * *
13418329 CCTCAATTTACAGAATTACCATTTTAC
1 CCTCAAATTATAAAATTACCATTTTAC
* *
13418356 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCAAATTATAAAATTACCATTTTAC
* *
13418383 CCTCAATTTATAAAATTACCGTTTTAC
1 CCTCAAATTATAAAATTACCATTTTAC
** * *
13418410 CCTTGATTTATAGAATTACCATTTTAC
1 CCTCAAATTATAAAATTACCATTTTAC
* * *
13418437 CCTCAATTTATAGAATTGCCATTTTAC
1 CCTCAAATTATAAAATTACCATTTTAC
13418464 CCT
1 CCT
13418467 TGATTTATAG
Statistics
Matches: 119, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (27 bp):
CCTCAAATTATAAAATTACCATTTTAC
Found at i:13418370 original size:54 final size:54
Alignment explanation
Indices: 13418312--13418745 Score: 447
Period size: 54 Copynumber: 7.8 Consensus size: 54
13418302 CCTCAAATTG
*** *
13418312 TAAAATTACCAAAGTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
* * *
13418366 TAAAATTACCATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTTGATTTA
1 TAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
* * *
13418420 TAGAATTACCATTTTACCCTCAATTTATAGAATTGCCATTTTACCCTTGATTTATAGAATTA
1 TAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCG----AT----TTA
* * *
13418482 TTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACC-GTTTACCCTCGATTTA
1 --TA-A-AATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
* *
13418539 TAAAATTACCATTTTGCCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
* * * * * *
13418593 TAGAATTACCGTTTTACCCCCGATTTACAGAATTACCATTTTACCCTCAATTTA
1 TAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
* *** * * *
13418647 TAGAATTACCAAAGTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
* * * * * *
13418701 CAAAATTACCATTTTACCCTCAGTTTACAAAATTATCGTTTTACC
1 TAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACC
13418746 TTCAATTGTG
Statistics
Matches: 323, Mismatches: 44, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
53 32 0.10
54 237 0.73
55 2 0.01
57 3 0.01
58 2 0.01
61 2 0.01
62 3 0.01
64 2 0.01
65 9 0.03
66 31 0.10
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (54 bp):
TAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
Found at i:13418425 original size:81 final size:81
Alignment explanation
Indices: 13418302--13418745 Score: 476
Period size: 81 Copynumber: 5.3 Consensus size: 81
13418292 ACTAAAATGT
* * *** * *
13418302 CCTCAAATTGTAAAATTACCAAAGTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAT
1 CCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT
13418367 AAAATTACCATTTTAC
66 AAAATTACCATTTTAC
* * *
13418383 CCTCAATTTATAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTAT
1 CCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT
* *
13418448 AGAATTGCCATTTTAC
66 AAAATTACCATTTTAC
* * *
13418464 CCTTGATTTATAGAATTATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACC-GTTTA
1 CC-TCA---AT----TTA--TA-A-AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTA
*
13418528 CCCTCGATTTATAAAATTACCATTTTGC
54 CCCTCGATTTATAAAATTACCATTTTAC
* * * * *
13418556 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCCCGATTTAC
1 CCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT
*
13418621 AGAATTACCATTTTAC
66 AAAATTACCATTTTAC
* *** * * *
13418637 CCTCAATTTATAGAATTACCAAAGTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTAC
1 CCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT
13418702 AAAATTACCATTTTAC
66 AAAATTACCATTTTAC
* * * *
13418718 CCTCAGTTTACAAAATTATCGTTTTACC
1 CCTCAATTTATAAAATTACCATTTTACC
13418746 TTCAATTGTG
Statistics
Matches: 305, Mismatches: 45, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
80 33 0.11
81 193 0.63
82 4 0.01
84 3 0.01
85 2 0.01
88 2 0.01
89 3 0.01
91 3 0.01
92 31 0.10
93 31 0.10
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (81 bp):
CCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT
AAAATTACCATTTTAC
Found at i:13418472 original size:27 final size:27
Alignment explanation
Indices: 13418326--13418481 Score: 222
Period size: 27 Copynumber: 5.8 Consensus size: 27
13418316 ATTACCAAAG
* *
13418326 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
13418353 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
13418380 TACCCTCAATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
13418407 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
13418434 TACCCTCAATTTATAGAATTGCCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
13418461 TACCCTTGATTTATAGAATTA
1 TACCCTCGATTTATAGAATTA
13418482 TTTATAGAAT
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:13418484 original size:12 final size:12
Alignment explanation
Indices: 13418469--13418493 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13418459 TTTACCCTTG
13418469 ATTTATAGAATT
1 ATTTATAGAATT
13418481 ATTTATAGAATT
1 ATTTATAGAATT
13418493 A
1 A
13418494 CCATTTTACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTATAGAATT
Found at i:13418485 original size:39 final size:39
Alignment explanation
Indices: 13418442--13418520 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
13418432 TTTACCCTCA
* * *
13418442 ATTTATAGAATTGCCATTTTACCCTTGATTTATAGAATT
1 ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATT
13418481 ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATT
1 ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATT
13418520 A
1 A
13418521 CCGTTTACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (39 bp):
ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATT
Found at i:13418492 original size:66 final size:65
Alignment explanation
Indices: 13418415--13418546 Score: 201
Period size: 66 Copynumber: 2.0 Consensus size: 65
13418405 TTTACCCTTG
* * * * *
13418415 ATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTGCCATTTTACCCTTGATTTATAGAAT
1 ATTTATAGAATTACCATTTTACCCTCAATTTATAAAATTACC-GTTTACCCTCGATTTATAAAAT
13418480 T
65 T
*
13418481 ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTACCCTCGATTTATAAAATT
1 ATTTATAGAATTACCATTTTACCCTCAATTTATAAAATTACCGTTTACCCTCGATTTATAAAATT
13418546 A
1 A
13418547 CCATTTTGCC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 21 0.35
66 39 0.65
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (65 bp):
ATTTATAGAATTACCATTTTACCCTCAATTTATAAAATTACCGTTTACCCTCGATTTATAAAATT
Found at i:13418599 original size:146 final size:147
Alignment explanation
Indices: 13418334--13418745 Score: 481
Period size: 146 Copynumber: 2.9 Consensus size: 147
13418324 AGTACCCTCA
*
13418334 ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAAAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCAGTTTACCCTCAATTTATAAAAT
* * *
13418399 TACCGTTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTGCCATTTTAC
66 TACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTAC
** *
13418464 CCTTGATTTATAGAATT
131 CCCCGATTTACAGAATT
* *
13418481 ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACC-GTTTACCCTCGATTTATAAAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCAGTTTACCCTCAATTTATAAAAT
* * *
13418545 TACCATTTTGCCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTA-
66 TACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTAC
13418609 CCCC------C-G----
131 CCCCGATTTACAGAATT
* * *** * *
13418615 ATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCAAAGTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCAGTTTACCCTCAATTTATAAAAT
* * * * * * * * *
13418680 TATCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTATCGTTTTAC
66 TACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTAC
13418745 C
131 C
13418746 TTCAATTGTG
Statistics
Matches: 234, Mismatches: 29, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
134 39 0.17
135 72 0.31
136 1 0.00
138 1 0.00
145 2 0.01
146 78 0.33
147 41 0.18
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (147 bp):
ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCAGTTTACCCTCAATTTATAAAAT
TACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTAC
CCCCGATTTACAGAATT
Found at i:13418745 original size:27 final size:27
Alignment explanation
Indices: 13418481--13418721 Score: 340
Period size: 27 Copynumber: 9.0 Consensus size: 27
13418471 TTATAGAATT
13418481 ATTTATAGAATTACCATTTTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTCG
* *
13418508 ATTTATAAAATTACC-GTTTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTCG
* *
13418534 ATTTATAAAATTACCATTTTGCCCTCG
1 ATTTATAGAATTACCATTTTACCCTCG
13418561 ATTTATAGAATTACCATTTTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTCG
* *
13418588 ATTTATAGAATTACCGTTTTACCCCCG
1 ATTTATAGAATTACCATTTTACCCTCG
* *
13418615 ATTTACAGAATTACCATTTTACCCTCA
1 ATTTATAGAATTACCATTTTACCCTCG
***
13418642 ATTTATAGAATTACCAAAGTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTCG
* *
13418669 ATTTATAGAATTATCGTTTTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTCG
* *
13418696 ATTTACAAAATTACCATTTTACCCTC
1 ATTTATAGAATTACCATTTTACCCTC
13418722 AGTTTACAAA
Statistics
Matches: 187, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 25 0.13
27 162 0.87
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
ATTTATAGAATTACCATTTTACCCTCG
Found at i:13418787 original size:27 final size:27
Alignment explanation
Indices: 13418756--13418826 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
13418746 TTCAATTGTG
*
13418756 AAATTACTAAAATACCCCT-GTAGGAT
1 AAATTACCAAAATACCCCTGGTAGGAT
* **
13418782 AGAATTACCAAAATACCACTGGTTTGAT
1 A-AATTACCAAAATACCCCTGGTAGGAT
13418810 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
13418827 TCAATTTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 1 0.03
27 31 0.82
28 6 0.16
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTAGGAT
Found at i:13418834 original size:27 final size:26
Alignment explanation
Indices: 13418779--13418860 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
13418769 ACCCCTGTAG
**
13418779 GATAGAATTACCAAAATACCACTGGTTT
1 GATA-AATTACCAAAATACC-CTAATTT
13418807 GATAAATTACCAAAATACCCTCAATTT
1 GATAAATTACCAAAATACCCT-AATTT
13418834 G-TAAAATTACCAAAATACCCCTAATTT
1 GAT-AAATTACCAAAATA-CCCTAATTT
13418861 ACAAAATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
26 3 0.06
27 38 0.78
28 8 0.16
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (26 bp):
GATAAATTACCAAAATACCCTAATTT
Found at i:13418866 original size:27 final size:26
Alignment explanation
Indices: 13418784--13418869 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
13418774 TGTAGGATAG
* ** *
13418784 AATTACCAAAATACCACTGGTTTGATA
1 AATTACCAAAATACCCCTAATTT-AAA
*
13418811 AATTACCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTT-AAA
13418838 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTA-AA
13418865 AATTA
1 AATTA
13418870 TAGAAATACC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 3 0.06
27 43 0.86
28 4 0.08
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCCTAATTTAAA
Found at i:13419904 original size:25 final size:24
Alignment explanation
Indices: 13419870--13419939 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
13419860 AGGAAGTGCT
13419870 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGTTTACC
*
13419894 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTCTGCCCCAGTTTACC
* *
13419919 AGAAAGGGCTTTACCCCAGTT
1 A-AAAGGGCTCTGCCCCAGTT
13419940 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGTTTACC
Found at i:13420146 original size:42 final size:42
Alignment explanation
Indices: 13420087--13420178 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
13420077 TAGTCTCCCC
** *
13420087 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
13420129 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
13420171 AAATGGGC
1 AAATGGGC
13420179 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:13420238 original size:31 final size:31
Alignment explanation
Indices: 13420202--13420307 Score: 176
Period size: 31 Copynumber: 3.4 Consensus size: 31
13420192 CGTTTACAGT
13420202 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
13420233 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
** * *
13420264 AAAGTATTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
13420295 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
13420308 CAGTAACCGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGCCTAGTGATATGATTTATGA
Found at i:13436518 original size:2 final size:2
Alignment explanation
Indices: 13436511--13436543 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13436501 AAATGGCCGA
13436511 AT 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 AT A
13436544 ACACGTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13441543 original size:20 final size:20
Alignment explanation
Indices: 13441518--13441555 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13441508 GTTTATTCGC
*
13441518 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
13441538 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
13441556 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:13443218 original size:28 final size:28
Alignment explanation
Indices: 13443186--13443254 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
13443176 GCGTAGATCA
13443186 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
13443214 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
13443242 CGATA-TACCCCTA
1 CGAAATTACCCCTA
13443255 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:13449531 original size:20 final size:20
Alignment explanation
Indices: 13449506--13449543 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13449496 GTTTATTCGC
*
13449506 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
13449526 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
13449544 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:13451192 original size:28 final size:28
Alignment explanation
Indices: 13451160--13451228 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
13451150 GCGTAGATCA
13451160 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
13451188 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
13451216 CGATA-TACCCCTA
1 CGAAATTACCCCTA
13451229 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:13454258 original size:2 final size:2
Alignment explanation
Indices: 13454251--13454282 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13454241 AGCTATCAAC
13454251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13454283 CGTATGCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13463528 original size:43 final size:43
Alignment explanation
Indices: 13463481--13463617 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
13463471 TATATGTAAA
*
13463481 CAAATATCGATGCCACTGTCCTAGACACGGTCTTACACGAAAT
1 CAAATATCGATGCCACTGTCCTAGACATGGTCTTACACGAAAT
* *
13463524 CAAATA-CGATGCTGA-TGTCCCAGACATGGTCTTACACGTAAAT
1 CAAATATCGATGC-CACTGTCCTAGACATGGTCTTACACG-AAAT
* * * *
13463567 CATAA-GTCGATGCCAAC-ATCCT-GACATGGTCTTACACAAAAA
1 CA-AATATCGATGCC-ACTGTCCTAGACATGGTCTTACACGAAAT
*
13463609 CACATATCG
1 CAAATATCG
13463618 GATCCTATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
41 1 0.01
42 35 0.46
43 28 0.37
44 12 0.16
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
CAAATATCGATGCCACTGTCCTAGACATGGTCTTACACGAAAT
Found at i:13465412 original size:4 final size:4
Alignment explanation
Indices: 13465403--13465473 Score: 142
Period size: 4 Copynumber: 17.8 Consensus size: 4
13465393 CAAAGGTTCA
13465403 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
13465451 TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TAT
13465474 ACAAAAGGAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:13471442 original size:12 final size:12
Alignment explanation
Indices: 13471418--13471470 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
13471408 AACGTTCCTC
13471418 TTTTTCTTTCTTT
1 TTTTTC-TTCTTT
*
13471431 TTGTTCTTCTTTAT
1 TTTTTCTTC-TT-T
13471445 TATTTTCTTCTTT
1 T-TTTTCTTCTTT
13471458 TTTTTCTCTCTTT
1 TTTTTCT-TCTTT
13471471 CTGAAAACGG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 9 0.26
13 14 0.41
14 4 0.12
15 7 0.21
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTCTTCTTT
Found at i:13472229 original size:22 final size:22
Alignment explanation
Indices: 13472175--13472271 Score: 69
Period size: 22 Copynumber: 4.5 Consensus size: 22
13472165 GTCCTTACTC
*
13472175 CACACGGGCGTGTGCCAT-A-AT
1 CACACGGGCGTGTGCC-TCACTT
* *
13472196 CACAAGGTCGTGTGCCTCACTT
1 CACACGGGCGTGTGCCTCACTT
*
13472218 CACACGGGCGTGTACCTCAGC--
1 CACACGGGCGTGTGCCTCA-CTT
* * *
13472239 CACACGGCCGTTTGTCC-CTCTT
1 CACACGGGCGTGTG-CCTCACTT
13472261 CACACGGGCGT
1 CACACGGGCGT
13472272 TTGACCTCTC
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
20 2 0.03
21 27 0.46
22 29 0.49
23 1 0.02
ACGTcount: A:0.18, C:0.35, G:0.26, T:0.22
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTCACTT
Found at i:13475360 original size:22 final size:21
Alignment explanation
Indices: 13475332--13475374 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13475322 GACATCACCA
*
13475332 TTTTTTTAATAAAAT-TTATTT
1 TTTTTTTTA-AAAATATTATTT
13475353 TTTTTTTTAAAAATATTATTT
1 TTTTTTTTAAAAATATTATTT
13475374 T
1 T
13475375 ATTAGTGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTTTTAAAAATATTATTT
Found at i:13475602 original size:12 final size:13
Alignment explanation
Indices: 13475586--13475620 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
13475576 AGAAGAGAGG
13475586 GAGAAGAAAGAAA
1 GAGAAGAAAGAAA
13475599 -AGAAGAAAGAAA
1 GAGAAGAAAGAAA
13475611 GGAGAAGAAA
1 -GAGAAGAAA
13475621 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAGAAGAAAGAAA
Found at i:13476272 original size:22 final size:22
Alignment explanation
Indices: 13476247--13476302 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
13476237 ATAAAGTGCA
13476247 ATACTTCGTGAAATATAGTTAT
1 ATACTTCGTGAAATATAGTTAT
13476269 ATACTTCGTGAAATATAGTTAT
1 ATACTTCGTGAAATATAGTTAT
13476291 ATACTTCGTGAA
1 ATACTTCGTGAA
13476303 GTTTATAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (22 bp):
ATACTTCGTGAAATATAGTTAT
Found at i:13482481 original size:49 final size:50
Alignment explanation
Indices: 13482214--13482486 Score: 207
Period size: 46 Copynumber: 5.7 Consensus size: 50
13482204 ACACCACATT
* * * *
13482214 ATGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTG--AG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCATAGATAG
* * * * * * *
13482262 ACGAGTGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCG--GG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCATAGATAG
* * *
13482308 ATGTA-AGCCAGTGTAAGA-CATGTCTGGAACAT-GCATCGGC-TACGA-A-
1 ATG-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCATA-GATAG
* * * *
13482354 ATGTG-TC-AGTATAAGACCATGTCTGGGACATGGCGTCGGCATAGATAT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCATAGATAG
* * * *
13482402 ATGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCGTCGGCCTCGGT-G
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCATAGATAG
* *
13482451 ATGATAGTTAGTGTAAGACCATGTCTGGGACATGGC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
13482487 ATCGACAACT
Statistics
Matches: 183, Mismatches: 31, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
44 8 0.04
45 15 0.08
46 57 0.31
47 17 0.09
48 18 0.10
49 34 0.19
50 34 0.19
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (50 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCATAGATAG
Found at i:13489451 original size:101 final size:101
Alignment explanation
Indices: 13489320--13489583 Score: 483
Period size: 101 Copynumber: 2.6 Consensus size: 101
13489310 ACTTCTGATC
*
13489320 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
13489385 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
13489421 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
13489486 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * * *
13489522 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATG
13489584 TGATCAGTGT
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 158 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
Found at i:13489468 original size:51 final size:51
Alignment explanation
Indices: 13489320--13489577 Score: 403
Period size: 51 Copynumber: 5.1 Consensus size: 51
13489310 ACTTCTGATC
* *
13489320 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
13489371 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
13489421 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
13489472 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
13489522 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
13489573 AGTGA
1 AGTGA
13489578 TAAATGTGAT
Statistics
Matches: 187, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
50 90 0.48
51 97 0.52
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
Found at i:13496255 original size:101 final size:101
Alignment explanation
Indices: 13496124--13496387 Score: 474
Period size: 101 Copynumber: 2.6 Consensus size: 101
13496114 ACTTCTGATC
*
13496124 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
13496189 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
*
13496225 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
13496290 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * * *
13496326 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATG
13496388 TGATCAGTGT
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 156 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
Found at i:13496272 original size:51 final size:51
Alignment explanation
Indices: 13496124--13496381 Score: 394
Period size: 51 Copynumber: 5.1 Consensus size: 51
13496114 ACTTCTGATC
* *
13496124 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
13496175 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * * *
13496225 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
13496276 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
13496326 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
13496377 AGTGA
1 AGTGA
13496382 TAAATGTGAT
Statistics
Matches: 185, Mismatches: 20, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
50 89 0.48
51 96 0.52
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
Found at i:13498602 original size:47 final size:46
Alignment explanation
Indices: 13498492--13498612 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 46
13498482 GTTATTGTGG
13498492 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAG-CACATTATGAGA
* *
13498538 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-GCATTGA-GACGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCACATT-ATGA-GA
13498584 GTGCTAGTGTAAGACATGTCTGGGACATG
1 --GCTAGTGTAAGACATGTCTGGGACATG
13498613 TTTGGGACAT
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
45 6 0.09
46 14 0.21
47 30 0.45
48 16 0.24
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCACATTATGAGA
Found at i:13501502 original size:195 final size:200
Alignment explanation
Indices: 13501173--13501596 Score: 594
Period size: 197 Copynumber: 2.1 Consensus size: 200
13501163 CACGATAAAT
* * *
13501173 ACTAAACTAAATACAAACAATTTATAACCTAATCATAAATAACTAACAAAATAACTTTCAAATAA
1 ACTAAACTAAACACAAACAATTTATAACCTAATCATAAATAACTAACAAAATAACTATAAAATAA
**
13501238 TTTAAAAAAAAATATTTTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
66 TTTAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
* * *
13501303 CCTAATCATAAATTACTAACAAAATAACTTTCAAATAA-TTAAAAAAATTTACATTCATAAAAA-
131 CCTAATCATAAATTACTAACAAAATAA-TATAAAATAATTTAAAAAAA--TACATTAATAAAAAT
*
13501366 T-CACAAC
193 TACAAAAC
* *
13501373 ACTAAACTAAACA-AAACAATTTATAACCTAATGAT-AATTACTAA-AAAATAACTATAAAATAA
1 ACTAAACTAAACACAAACAATTTATAACCTAATCATAAATAACTAACAAAATAACTATAAAATAA
** * *
13501435 TTTTTAAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAGCACAAACAATTTATAA
66 TTTAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
* *
13501498 CCTAATCATAAATTATTTACAAAATAATATAAAATAATTTTAAAAAAATACATTAATAAAAATTT
131 CCTAATCATAAATTACTAACAAAATAATATAAAATAA-TTTAAAAAAATACATTAATAAAAA-TT
13501563 ACAAAAC
194 ACAAAAC
13501570 ACTAAACTAAACACAAACAATTTATAA
1 ACTAAACTAAACACAAACAATTTATAA
13501597 TAATTAATAA
Statistics
Matches: 201, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
194 21 0.10
195 55 0.27
196 11 0.05
197 60 0.30
198 21 0.10
199 21 0.10
200 12 0.06
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (200 bp):
ACTAAACTAAACACAAACAATTTATAACCTAATCATAAATAACTAACAAAATAACTATAAAATAA
TTTAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
CCTAATCATAAATTACTAACAAAATAATATAAAATAATTTAAAAAAATACATTAATAAAAATTAC
AAAAC
Found at i:13501539 original size:99 final size:100
Alignment explanation
Indices: 13501139--13501596 Score: 583
Period size: 103 Copynumber: 4.6 Consensus size: 100
13501129 AAAAACACAA
* * * * * *
13501139 AAAAAAATTATATTTATAACAAGTCACGATAAATACTAAACTAAATACAAACAATTTATAACCTA
1 AAAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTATAACCTA
* * *
13501204 ATCATAAATAACTAACAAAATAACTTTCAAATAATTT
64 ATCATAAATTACTAACAAAATAACTATAAAATAATTT
* **
13501241 AAAAAAAAATATTTTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACCT
1 -AAAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTATAACCT
* *
13501306 AATCATAAATTACTAACAAAATAACTTTCAAATAA-TT
63 AATCATAAATTACTAACAAAATAACTATAAAATAATTT
13501343 AAAAAAATTTACATTCAT-AAAAATCAC--AACACTAAACTAAACA-AAACAATTTATAACCTAA
1 AAAAAAA-TTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAA
*
13501404 TGAT-AATTACTAA-AAAATAACTATAAAATAATTTT
65 TCATAAATTACTAACAAAATAACTATAAAATAA-TTT
* *
13501439 TAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAGCACAAACAATTTATAACCTAAT
1 AAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAAT
* *
13501504 CATAAATTATTTACAAAATAA-TATAAAATAATTTT
66 CATAAATTACTAACAAAATAACTATAAAATAA-TTT
* * *
13501539 AAAAAAA-TACATTAATAAAAATTTACAAAACACTAAACTAAACACAAACAATTTATAA
1 AAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAA
13501597 TAATTAATAA
Statistics
Matches: 321, Mismatches: 25, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
94 16 0.05
95 19 0.06
96 38 0.12
97 16 0.05
98 15 0.05
99 68 0.21
100 27 0.08
101 23 0.07
102 9 0.03
103 90 0.28
ACGTcount: A:0.57, C:0.14, G:0.01, T:0.28
Consensus pattern (100 bp):
AAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAAT
CATAAATTACTAACAAAATAACTATAAAATAATTT
Found at i:13501688 original size:4 final size:4
Alignment explanation
Indices: 13501681--13501735 Score: 57
Period size: 4 Copynumber: 14.5 Consensus size: 4
13501671 ACATACCATT
13501681 TTTC TTTC TTTC TTTC TTTC TTTC -TTC -TTC -TTC -TTC -TTC TTTTCC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C
13501726 TTTC TTTC TT
1 TTTC TTTC TT
13501736 CTCATTCCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 15 0.31
4 27 0.56
5 5 0.10
6 1 0.02
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:13501751 original size:29 final size:29
Alignment explanation
Indices: 13501696--13501751 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
13501686 TTCTTTCTTT
* *
13501696 CTTTCTTTCTTCTTCTTCTTCTTCTTTTC
1 CTTTCTTTCTTCTTCTTCCTCTCCTTTTC
13501725 CTTTCTTTCTTC-TCATTCCTCTCCTTT
1 CTTTCTTTCTTCTTC-TTCCTCTCCTTT
13501752 CTTTCCCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (29 bp):
CTTTCTTTCTTCTTCTTCCTCTCCTTTTC
Found at i:13509434 original size:21 final size:22
Alignment explanation
Indices: 13509385--13509442 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 22
13509375 TTACCCAAAA
13509385 AAAATATAACATTTAAAAAAAACAG
1 AAAATATAA-A-TT-AAAAAAACAG
*
13509410 AAAA-ATTAAATTAAAAAAAC-T
1 AAAATA-TAAATTAAAAAAACAG
13509431 AAAATATAAATT
1 AAAATATAAATT
13509443 TGGAAAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 10 0.33
22 9 0.30
23 2 0.07
24 2 0.07
25 7 0.23
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAATATAAATTAAAAAAACAG
Found at i:13515962 original size:46 final size:46
Alignment explanation
Indices: 13515919--13516093 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
13515909 TCATCTCGTA
13515919 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGAG
* * *
13515965 GCC-ATTGCATGTCCCAGACATGTCTTACACTAGCCCT-TGTCTCAAT
1 GCCGA-TGCATGTCCCAGACATGTCTTACACTAG-CTTATGTCTCGAG
* * * ** *
13516011 GCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCAT-AAT-GCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-T-ATGTCTCGAG
* *
13516059 GCTGATACATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
13516094 CAAACACGAA
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 55 0.53
47 30 0.29
48 16 0.15
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGAG
Found at i:13517793 original size:64 final size:64
Alignment explanation
Indices: 13517715--13517840 Score: 225
Period size: 64 Copynumber: 2.0 Consensus size: 64
13517705 TTTCCTCCAC
* *
13517715 CGAGATACTTTTAAAAATACCTTATCACCGACTTGAAACTCAATTTCCTTTCGTTTCAAATCCG
1 CGAGATACTTTTAAAAATACCTTATCACCAACTTGAAACTCAATTTCCTTTCATTTCAAATCCG
*
13517779 CGAGATACTTTTAAAAATACCTTATCATCAACTTGAAACTCAATTTCCTTTCATTTCAAATC
1 CGAGATACTTTTAAAAATACCTTATCACCAACTTGAAACTCAATTTCCTTTCATTTCAAATC
13517841 TGCGTAGGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (64 bp):
CGAGATACTTTTAAAAATACCTTATCACCAACTTGAAACTCAATTTCCTTTCATTTCAAATCCG
Found at i:13523647 original size:47 final size:47
Alignment explanation
Indices: 13523556--13523647 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 47
13523546 AGGGTAAGGT
* * * *
13523556 GTCGATGCCATGTCCTAGACATGGTATTATACTGGCTCATATCTCAA
1 GTCGATGCCATGTCCAAGAAATGGTATTACACTGACTCATATCTCAA
*
13523603 GTCGATGCCATGTCCAAGAAATGGTCTTACACTGACT-ATCATCTC
1 GTCGATGCCATGTCCAAGAAATGGTATTACACTGACTCAT-ATCTC
13523648 GTAGCCGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 2 0.05
47 37 0.95
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (47 bp):
GTCGATGCCATGTCCAAGAAATGGTATTACACTGACTCATATCTCAA
Found at i:13523802 original size:47 final size:44
Alignment explanation
Indices: 13523702--13523826 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 44
13523692 TCAAGGACGT
*
13523702 TGCATGTCCCAGGCATGTCTTACACTAGCCCTCGTCTTAATGCTGA
1 TGCATGTCCCAGGCATGTCTTACACTAG--CTCGTCATAATGCTGA
*
13523748 TGTCATGTCCCAGGCATGGTCTTACACTAGCTC-TCATAATGTGGTTGA
1 TG-CATGTCCCAGGCAT-GTCTTACACTAGCTCGTCATAA--T-GCTGA
*
13523796 TGCATGTCCCAGACATGTCTTACACTAGCTC
1 TGCATGTCCCAGGCATGTCTTACACTAGCTC
13523827 ACACACGAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
45 5 0.07
46 20 0.28
47 28 0.39
48 18 0.25
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCATGTCCCAGGCATGTCTTACACTAGCTCGTCATAATGCTGA
Found at i:13526044 original size:15 final size:16
Alignment explanation
Indices: 13526026--13526063 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
13526016 AATTGAAAAG
13526026 ATGAAAATTT-ATTAA
1 ATGAAAATTTAATTAA
*
13526041 ATGACAATTTAATTAA
1 ATGAAAATTTAATTAA
13526057 ATGAAAA
1 ATGAAAA
13526064 AGAAAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:13549282 original size:11 final size:11
Alignment explanation
Indices: 13549268--13549303 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
13549258 AAAGAACAAT
13549268 AAAACAACACC
1 AAAACAACACC
13549279 AAAACAACACC
1 AAAACAACACC
* *
13549290 AAAATAGCACC
1 AAAACAACACC
13549301 AAA
1 AAA
13549304 GCAAGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.64, C:0.31, G:0.03, T:0.03
Consensus pattern (11 bp):
AAAACAACACC
Found at i:13549970 original size:11 final size:11
Alignment explanation
Indices: 13549954--13550105 Score: 128
Period size: 11 Copynumber: 13.8 Consensus size: 11
13549944 CCTAAGTATA
13549954 AAAACAGCACC
1 AAAACAGCACC
*
13549965 AAAACAGCAAC
1 AAAACAGCACC
13549976 AAAACAGCACC
1 AAAACAGCACC
**
13549987 -AAACAGCATA
1 AAAACAGCACC
* *
13549997 AAAATAGCACAA
1 AAAACAGCAC-C
*
13550009 AAAATAGCACC
1 AAAACAGCACC
*
13550020 AAAACATCACC
1 AAAACAGCACC
* *
13550031 AAAACAACAAC
1 AAAACAGCACC
13550042 AAAACAGCACC
1 AAAACAGCACC
* **
13550053 AAAATAGCATA
1 AAAACAGCACC
* *
13550064 AAAATAGCACAA
1 AAAACAGCAC-C
13550076 AAAACAGCACC
1 AAAACAGCACC
*
13550087 -AAACAGCACA
1 AAAACAGCACC
*
13550097 AAAATAGCA
1 AAAACAGCA
13550106 TCACCAAAAA
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
10 17 0.15
11 78 0.67
12 21 0.18
ACGTcount: A:0.61, C:0.26, G:0.08, T:0.05
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:13550021 original size:33 final size:34
Alignment explanation
Indices: 13549955--13550045 Score: 55
Period size: 34 Copynumber: 2.7 Consensus size: 34
13549945 CTAAGTATAA
* *
13549955 AAACAGCACCAAAACAGCA-ACAAAACAGCAC--C
1 AAACAGCACCAAAACAGCACA-AAAATAGCACAAA
** * *
13549987 AAACAGCATAAAAATAGCACAAAAAATAGCAC-CA
1 AAACAGCACCAAAACAGCAC-AAAAATAGCACAAA
* *
13550021 AAACATCACCAAAACAACAACAAAA
1 AAACAGCACCAAAACAGC-ACAAAA
13550046 CAGCACCAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
32 16 0.36
33 9 0.20
34 18 0.40
35 2 0.04
ACGTcount: A:0.62, C:0.27, G:0.07, T:0.04
Consensus pattern (34 bp):
AAACAGCACCAAAACAGCACAAAAATAGCACAAA
Found at i:13550078 original size:66 final size:66
Alignment explanation
Indices: 13549954--13550100 Score: 233
Period size: 66 Copynumber: 2.2 Consensus size: 66
13549944 CCTAAGTATA
* *
13549954 AAAACAGCACCAAAACAGCAACAAAACAGCACCAAACAGCATAAAAATAGCACAAAAAATAGCAC
1 AAAACAGCACCAAAACAACAACAAAACAGCACCAAACAGCATAAAAATAGCACAAAAAACAGCAC
13550019 C
66 C
* *
13550020 AAAACATCACCAAAACAACAACAAAACAGCACCAAAATAGCATAAAAATAGCACAAAAAACAGCA
1 AAAACAGCACCAAAACAACAACAAAACAGCACC-AAACAGCATAAAAATAGCACAAAAAACAGCA
13550085 CC
65 CC
*
13550087 -AAACAGCACAAAAA
1 AAAACAGCACCAAAA
13550101 TAGCATCACC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
66 43 0.58
67 31 0.42
ACGTcount: A:0.61, C:0.27, G:0.07, T:0.05
Consensus pattern (66 bp):
AAAACAGCACCAAAACAACAACAAAACAGCACCAAACAGCATAAAAATAGCACAAAAAACAGCAC
C
Found at i:13550127 original size:23 final size:24
Alignment explanation
Indices: 13550071--13550128 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
13550061 ATAAAAATAG
* *
13550071 CACAAAAA-A-CAGCACCAAACAG
1 CACAAAAATAGCATCACCAAACAA
13550093 CACAAAAATAGCATCACCAAA-AA
1 CACAAAAATAGCATCACCAAACAA
*
13550116 CACTAAAATAGCA
1 CACAAAAATAGCA
13550129 CAAAAAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 14 0.45
24 9 0.29
ACGTcount: A:0.59, C:0.28, G:0.07, T:0.07
Consensus pattern (24 bp):
CACAAAAATAGCATCACCAAACAA
Found at i:13554610 original size:40 final size:40
Alignment explanation
Indices: 13554561--13554728 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
13554551 TCTTCGGAAA
* * *
13554561 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * ** * *
13554600 TTAACCCGGATTTAGTAACTTGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
13554640 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
13554680 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
13554720 TTAGCCCGG
1 TTAGCCCGG
13554729 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:13557715 original size:40 final size:40
Alignment explanation
Indices: 13557669--13557893 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
13557659 CTTGCACAAG
* * *
13557669 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
13557709 GCCTTCGGGACTTAGCCCGGATATAGTCATTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
13557749 GCCTTCGGGTTTTAGCCCGGGTATAATCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
13557789 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * * * *
13557829 GCCTTCGGATCTTAGTCTGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
13557870 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
13557894 CATTCGAATA
Statistics
Matches: 155, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 28 0.18
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:13557764 original size:80 final size:80
Alignment explanation
Indices: 13557633--13557893 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 80
13557623 CTCAAGAAAT
* * * ** * * *
13557633 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
13557696 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
13557711 CTTCGGGACTTAGCCCGGATATAGTC-A-TTAGCACAAATGCCTTCGGGTTTTAGCCCGGGTATA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCA-CACAAATGCCTTCGGGTCTTAGCCCGGATATA
*
13557774 ATCACTAGCACAAATGC
64 GTCACTAGCACAAATGC
* * * * * *
13557791 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACGAATGCCTTCGGATCTTAGTCTGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
13557856 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
13557872 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
13557894 CATTCGAATA
Statistics
Matches: 155, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 92 0.59
81 35 0.23
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:13562329 original size:29 final size:29
Alignment explanation
Indices: 13562296--13562369 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
13562286 GTGACGAGAT
13562296 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
13562325 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
13562354 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
13562370 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:13562385 original size:29 final size:29
Alignment explanation
Indices: 13562353--13562426 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 29
13562343 CTGGAAATAT
* *
13562353 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * *
13562382 ATGGCACT--GTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
13562409 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
13562427 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
27 22 0.59
29 15 0.41
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:13570171 original size:29 final size:29
Alignment explanation
Indices: 13570138--13570211 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
13570128 GTGACGAGAT
13570138 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
13570167 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
13570196 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
13570212 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:13570227 original size:29 final size:29
Alignment explanation
Indices: 13570195--13570270 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
13570185 CTGGAAATAT
* *
13570195 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
13570224 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
13570253 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
13570271 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:13570238 original size:58 final size:58
Alignment explanation
Indices: 13570138--13570270 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
13570128 GTGACGAGAT
* * * * * *
13570138 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
13570196 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
13570254 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
13570271 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:13577724 original size:80 final size:80
Alignment explanation
Indices: 13577640--13577788 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
13577630 TATGGTAACC
* * * *
13577640 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
13577704 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
13577720 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
13577785 CCGG
66 CCGG
13577789 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:13577730 original size:40 final size:38
Alignment explanation
Indices: 13577681--13577788 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
13577671 ATCACGATTT
*
13577681 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
13577721 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
13577761 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
13577789 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:13581808 original size:49 final size:49
Alignment explanation
Indices: 13581755--13581929 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 49
13581745 ACATATCTAA
* **
13581755 GTCGATGCCATGTCCTAGACAAGTCTTACACTGATTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAAGTCTTACACTGGCTTTCATATATCGAG
* * * *
13581804 GTCGATGCCATGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCG-G
1 GTCGATGCCATGTCCCAGACAAGTCTTACACTGGCTTTCATATATCGAG
* * * *
13581852 TGTTGATGCCATGTCCCAGAC-AGCTCTTACACTGGCTTGCATATCTTGAG
1 -GTCGATGCCATGTCCCAGACAAG-TCTTACACTGGCTTTCATATATCGAG
* * *
13581902 GCCGATG-CATGTCTCAGACATGTCTTAC
1 GTCGATGCCATGTCCCAGACAAGTCTTAC
13581930 CCTATCTCTC
Statistics
Matches: 103, Mismatches: 19, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
48 19 0.18
49 83 0.81
50 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAAGTCTTACACTGGCTTTCATATATCGAG
Found at i:13582673 original size:20 final size:21
Alignment explanation
Indices: 13582648--13582687 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13582638 AAAATTTTAA
13582648 TTATTTCACAAA-TTTACAAC
1 TTATTTCACAAACTTTACAAC
* *
13582668 TTATTTTATAAACTTTACAA
1 TTATTTCACAAACTTTACAA
13582688 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATTTCACAAACTTTACAAC
Found at i:13592965 original size:54 final size:59
Alignment explanation
Indices: 13592883--13592991 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 59
13592873 ATTACTTTAA
* *
13592883 TATTAAATTAATATAATACTTATCAAGATAAATATTAGACTAAATTTAATATTAAATCT
1 TATTAAATTAATATAATACTTATCAAGATAAACATTAAACTAAATTTAATATTAAATCT
* *
13592942 TATTAAATT-A-ATAAT-C-TAT-AAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAATTAATATAATACTTATCAAGATAAACATTAAACTAAATTTAATATTAA
13592992 GATAATCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
54 27 0.59
55 3 0.07
56 1 0.02
57 5 0.11
58 1 0.02
59 9 0.20
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
TATTAAATTAATATAATACTTATCAAGATAAACATTAAACTAAATTTAATATTAAATCT
Found at i:13595213 original size:80 final size:80
Alignment explanation
Indices: 13595042--13595227 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 80
13595032 ATTGAATGAT
* * * * *
13595042 ATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
* *
13595107 TGTGCTAGTGGCTAC
66 TGTGCAAGTGGCTAA
* *
13595122 ATCCGGACTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
* *
13595186 TCGTGCAAGTTGTTAA
66 T-GTGCAAGTGGCTAA
* *
13595202 ATTCGGGCTAAGACCCGAAGG-CATTT
1 ATCCGGGCTAAGTCCCG-AGGACATTT
13595228 GTGCAAATCG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 3 0.03
80 84 0.93
81 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTGGCTAA
Found at i:13595232 original size:40 final size:40
Alignment explanation
Indices: 13595082--13595233 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
13595072 TGGAAATTAT
* * * * * *
13595082 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
* * * * * *
13595122 ATCCGGACTAAGTCCCG-AGGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAGTTAA
* *
13595162 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
*
13595202 ATTCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
13595234 ATCGTGATAT
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 85 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
Found at i:13595244 original size:80 final size:80
Alignment explanation
Indices: 13595080--13595253 Score: 190
Period size: 80 Copynumber: 2.2 Consensus size: 80
13595070 GCTGGAAATT
* * *
13595080 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGACTAAGTCCCGAGGACA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGACTAAGACCCGAGGACA
* * *
13595145 TTTATGCTAGTAATT
66 TTTATGCAAATAATG
* * * * *
13595160 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAAATTCGGGCTAAGACCCGAAGG-
1 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTGGCTAAATCCGGACTAAGACCCG-AGGA
* **
13595223 CATTTGTGCAAATCGTG
64 CATTTATGCAAATAATG
13595240 ATATCCGGGTTAAG
1 ATATCCGGGTTAAG
13595254 TCTCGTAGGC
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 3 0.04
80 71 0.92
81 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGACTAAGACCCGAGGACA
TTTATGCAAATAATG
Found at i:13598196 original size:16 final size:15
Alignment explanation
Indices: 13598175--13598204 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13598165 TGTTTAAAAT
13598175 TACATAGCATCATATA
1 TACATAGCAT-ATATA
13598191 TACATAGCATATAT
1 TACATAGCATATAT
13598205 TGAAGATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (15 bp):
TACATAGCATATATA
Found at i:13598501 original size:11 final size:11
Alignment explanation
Indices: 13598485--13598527 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
13598475 AATAGTATTA
13598485 ATATATAATAT
1 ATATATAATAT
*
13598496 ATATATAATAA
1 ATATATAATAT
*
13598507 AAATATAATAATT
1 ATATATAAT-A-T
13598520 ATATATAA
1 ATATATAA
13598528 AAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 18 0.69
12 1 0.04
13 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATATATAATAT
Found at i:13598535 original size:26 final size:25
Alignment explanation
Indices: 13598484--13598540 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
13598474 AAATAGTATT
*
13598484 AATAT-ATAATATATATATAATAAA
1 AATATAATAATATATATAAAATAAA
13598508 AATATAATAATTATATATAAAAATAAA
1 AATATAATAA-TATATAT-AAAATAAA
13598535 ATATAT
1 A-ATAT
13598541 TGGTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 5 0.18
25 4 0.14
26 7 0.25
27 8 0.29
28 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AATATAATAATATATATAAAATAAA
Found at i:13598736 original size:12 final size:11
Alignment explanation
Indices: 13598719--13598824 Score: 65
Period size: 12 Copynumber: 9.2 Consensus size: 11
13598709 TAAAGTTATA
13598719 AATAATATAAT
1 AATAATATAAT
*
13598730 GAATAATATCAT
1 -AATAATATAAT
13598742 AAATAATATAAT
1 -AATAATATAAT
13598754 AGATAATATACAAT
1 A-ATAATAT--AAT
*
13598768 ATACAATATACAT
1 A-ATAATATA-AT
* *
13598781 AACATATATAAA
1 AATA-ATATAAT
*
13598793 AATAATA-AGT
1 AATAATATAAT
*
13598803 AATTAT-TAAT
1 AATAATATAAT
13598813 AA-AATATAAT
1 AATAATATAAT
13598823 AA
1 AA
13598825 ATGTTATAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
9 2 0.03
10 16 0.21
11 4 0.05
12 35 0.47
13 8 0.11
14 10 0.13
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (11 bp):
AATAATATAAT
Found at i:13598745 original size:24 final size:24
Alignment explanation
Indices: 13598716--13598762 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13598706 TTTTAAAGTT
13598716 ATAAATAATATAAT-GAATAATATC
1 ATAAATAATATAATAG-ATAATATC
13598740 ATAAATAATATAATAGATAATAT
1 ATAAATAATATAATAGATAATAT
13598763 ACAATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
ATAAATAATATAATAGATAATATC
Found at i:13598875 original size:19 final size:19
Alignment explanation
Indices: 13598818--13598876 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 19
13598808 TTAATAAAAT
* *
13598818 ATAATAAATGTTATAATAAA
1 ATAATATATGATA-AATAAA
**
13598838 TATAATATAT-AT-AGGAAA
1 -ATAATATATGATAAATAAA
13598856 ATAATATATGATAAATAAA
1 ATAATATATGATAAATAAA
13598875 AT
1 AT
13598877 TTTTATATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
17 9 0.30
18 6 0.20
19 6 0.20
20 1 0.03
21 8 0.27
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (19 bp):
ATAATATATGATAAATAAA
Found at i:13598930 original size:25 final size:25
Alignment explanation
Indices: 13598856--13598917 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
13598846 ATATAGGAAA
**
13598856 ATAATATATGATAAATAAAATTTTTAT
1 ATAA-ATAT-ATAAATAGTATTTTTAT
13598883 ATAAATATATAAATAGTATTTTTA-
1 ATAAATATATAAATAGTATTTTTAT
13598907 ATATAATATAT
1 ATA-AATATAT
13598918 GTATATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 3 0.09
25 21 0.66
26 4 0.12
27 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
ATAAATATATAAATAGTATTTTTAT
Found at i:13598931 original size:27 final size:27
Alignment explanation
Indices: 13598856--13598952 Score: 74
Period size: 27 Copynumber: 3.6 Consensus size: 27
13598846 ATATAGGAAA
* **
13598856 ATAATATATGATAAATAAAATTTTT-AT
1 ATAATATATG-TATATATTATTTTTAAT
* * *
13598883 ATAA-ATATATAAATAGTATTTTTAAT
1 ATAATATATGTATATATTATTTTTAAT
* *
13598909 ATAATATATGTATATATTTTTTTTAAA
1 ATAATATATGTATATATTATTTTTAAT
*
13598936 ATAAATAAATG-ATATAT
1 AT-AATATATGTATATAT
13598953 GTAACACCCC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
25 12 0.21
26 10 0.17
27 29 0.50
28 7 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
ATAATATATGTATATATTATTTTTAAT
Found at i:13600453 original size:39 final size:39
Alignment explanation
Indices: 13600322--13600512 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
13600312 GGATATAACG
* ** **
13600322 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
13600362 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
13600402 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
13600440 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
13600480 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
13600513 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:13600457 original size:78 final size:80
Alignment explanation
Indices: 13600362--13600512 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
13600352 GGTTATAGCG
* * * *
13600362 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
13600424 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
13600440 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
13600505 AGCCCGGA
66 AGCCCGGA
13600513 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:13608868 original size:40 final size:39
Alignment explanation
Indices: 13608823--13609030 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
13608813 CGGAATACAA
*
13608823 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13608863 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13608903 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
13608943 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
13608983 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
13609023 CCGGATAT
1 CCGGATAT
13609031 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13608970 original size:80 final size:81
Alignment explanation
Indices: 13608823--13609028 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
13608813 CGGAATACAA
* * * *
13608823 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
13608887 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
13608903 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
13608966 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
13608983 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
13609029 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Done.