Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 37 of 175
Found at i:10080517 original size:32 final size:32
Alignment explanation
Indices: 10080481--10080544 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
10080471 TCACTTAATC
10080481 ACAAAACCTAAAATTTCACATTCTAAACTGAT
1 ACAAAACCTAAAATTTCACATTCTAAACTGAT
10080513 ACAAAACCTAAAATTTCACATTCTAAACTGAT
1 ACAAAACCTAAAATTTCACATTCTAAACTGAT
10080545 CACCACACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (32 bp):
ACAAAACCTAAAATTTCACATTCTAAACTGAT
Found at i:10083990 original size:13 final size:13
Alignment explanation
Indices: 10083968--10083999 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10083958 GCGCATGAAT
10083968 ATAA-AAATAATA
1 ATAATAAATAATA
10083980 ATAATAAATAATA
1 ATAATAAATAATA
10083993 ATAATAA
1 ATAATAA
10084000 TGATACAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:10084497 original size:19 final size:19
Alignment explanation
Indices: 10084473--10084545 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
10084463 AATCATATCT
10084473 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
10084492 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
10084511 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10084530 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10084546 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10085438 original size:32 final size:32
Alignment explanation
Indices: 10085347--10085439 Score: 125
Period size: 32 Copynumber: 2.9 Consensus size: 32
10085337 AACATGACCA
* *
10085347 TGTGGCCCACACGGCCCAAATATCCCAAATCG
1 TGTGGCCCACACAGCCCAAATATCCCAGATCG
*
10085379 TGTGGCCCACACA-TCCAGAATATCCCAGATCG
1 TGTGGCCCACACAGCCCA-AATATCCCAGATCG
* *
10085411 TGTGGCCTACACAGCCCAAATAGCCCAGA
1 TGTGGCCCACACAGCCCAAATATCCCAGA
10085440 CCGTTTGGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.06
32 47 0.89
33 3 0.06
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.16
Consensus pattern (32 bp):
TGTGGCCCACACAGCCCAAATATCCCAGATCG
Found at i:10090361 original size:3 final size:3
Alignment explanation
Indices: 10090353--10090387 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10090343 AGGGTTTTAA
10090353 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10090388 AAGCTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10090925 original size:18 final size:19
Alignment explanation
Indices: 10090890--10090955 Score: 75
Period size: 18 Copynumber: 3.5 Consensus size: 19
10090880 TTTTTCAACC
10090890 TAAT-ATTTTAAATATTTT
1 TAATAATTTTAAATATTTT
*
10090908 TAATAATTTTACAT-TTTT
1 TAATAATTTTAAATATTTT
*
10090926 TTATAATTTTAAAAATATTTT
1 TAATAATTTT--AAATATTTT
10090947 T-ATAATTTT
1 TAATAATTTT
10090956 TTTGAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 17 0.41
19 8 0.20
20 11 0.27
21 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TAATAATTTTAAATATTTT
Found at i:10090946 original size:20 final size:18
Alignment explanation
Indices: 10090894--10090955 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 18
10090884 TCAACCTAAT
10090894 ATTTTAAATATTTTTAATA
1 ATTTTAAATATTTTT-ATA
* *
10090913 ATTTTACATTTTTTTATA
1 ATTTTAAATATTTTTATA
10090931 ATTTTAAAAATATTTTTATA
1 ATTTT--AAATATTTTTATA
10090951 ATTTT
1 ATTTT
10090956 TTTGAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.22
19 13 0.35
20 16 0.43
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTAAATATTTTTATA
Found at i:10091291 original size:19 final size:18
Alignment explanation
Indices: 10091244--10091292 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
10091234 TTTTATCTAA
*
10091244 TTTATTTTTCTATAATTT
1 TTTATTTTTTTATAATTT
* *
10091262 TTTAATTTTTTATTCATTT
1 TTTATTTTTTTA-TAATTT
10091281 TTTATTTTTTTA
1 TTTATTTTTTTA
10091293 CTTTCTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTTTATAATTT
Found at i:10092303 original size:106 final size:106
Alignment explanation
Indices: 10092118--10092329 Score: 361
Period size: 106 Copynumber: 2.0 Consensus size: 106
10092108 CATACGTAAT
* * *
10092118 TTGCAACCTGCAAGTTAGTGGCAATGGTTTATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
1 TTGCAACCTGCAAGTTAATGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
* *
10092183 AGAAAAATGACAAGCAAGAATAATTTAAAATCATGCAATGG
66 AGAAAAACGACAAGCAAGAATAATATAAAATCATGCAATGG
10092224 TTGCAACCTGCAAGTTAATGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
1 TTGCAACCTGCAAGTTAATGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
* *
10092289 AGAAAGACGACAAGCAAGAATCATATAAAATCATGCAATGG
66 AGAAAAACGACAAGCAAGAATAATATAAAATCATGCAATGG
10092330 CAAATGTGAT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (106 bp):
TTGCAACCTGCAAGTTAATGGCAACGGTTCATCTTCCTGGAATGCAAGGGGTAAGAACAACAAAT
AGAAAAACGACAAGCAAGAATAATATAAAATCATGCAATGG
Found at i:10096099 original size:97 final size:95
Alignment explanation
Indices: 10095946--10096138 Score: 343
Period size: 97 Copynumber: 2.0 Consensus size: 95
10095936 TGAGCAGACA
10095946 CTAGCTCATATTGGAGAAGTAAAGTTTCAGTAAAAAAATGAAAAATTAAAGATTCTTAAAGTAGC
1 CTAGCTCATATTGGAGAAGTAAAGTTTCAGTAAAAAAATGAAAAATTAAAGATTCTTAAAGTAGC
10096011 AAAAAAAGGAAATCCTACAGAAATAGGGCC
66 AAAAAAAGGAAATCCTACAGAAATAGGGCC
*
10096041 CTAGCTCATATTGGAGGAGAGGTAAAGTTTCAGT-AAAAAATGAAAAATTGAAGATTCTTAAAGT
1 CTAGCTCATATTGGA-GA-A-GTAAAGTTTCAGTAAAAAAATGAAAAATTAAAGATTCTTAAAGT
10096105 AGCAAAAAAAGGAAATCCTACAGAAATAGGGCC
63 AGCAAAAAAAGGAAATCCTACAGAAATAGGGCC
10096138 C
1 C
10096139 CCTAAAAACA
Statistics
Matches: 94, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
95 15 0.16
96 2 0.02
97 64 0.68
98 13 0.14
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.22
Consensus pattern (95 bp):
CTAGCTCATATTGGAGAAGTAAAGTTTCAGTAAAAAAATGAAAAATTAAAGATTCTTAAAGTAGC
AAAAAAAGGAAATCCTACAGAAATAGGGCC
Found at i:10100866 original size:196 final size:194
Alignment explanation
Indices: 10100532--10100922 Score: 545
Period size: 196 Copynumber: 2.0 Consensus size: 194
10100522 TACAACCACC
*
10100532 CTAGAGAAAATTAATAAAATGCAGAACAAAAGCACAAACCAAATAAGCAACAAAAACTTAAAAAG
1 CTAGAGAAAATTAATAAAATGCAGAACAAAAGCACAAACCAAATAAACAACAAAAACTTAAAAAG
* *
10100597 CAGAAGTTTAATGCACTTCATTATCTTATGACTTAAGAGAAGGGGGACTTCTAATAAATTGTACC
66 CAGAAGTTTAATGCACTTCATTATCTTATGACTTAAGAAAAAGGGGACTTCTAATAAATTGTACC
* * *
10100662 AACAGATTCACATTTCAAAAAGGATCAATTTAC-AGGATTAG-CCTTTGGATAGAAGATTAAGCT
131 AACAGATTCACATTTCAAAAAGGATCAATTTACTAGAATT-GCCCCTTGAATAGAAGATTAAGCT
* * ** *
10100725 CTAGAGAGAATTAATAAAATGTAGAACAACAAAAGTGCAAACCAAATAAACGAA-AAAAACTTTA
1 CTAGAGAAAATTAATAAAATGCAG---AACAAAAGCACAAACCAAATAAAC-AACAAAAACTTAA
* ** *
10100789 TATTCAGAAGTTTAATGTACTTCATTATCTTATGACTTAAGAAAAAGGGGACTTCTAATAAATTG
62 AAAGCAGAAGTTTAATGCACTTCATTATCTTATGACTTAAGAAAAAGGGGACTTCTAATAAATTG
*** *
10100854 TACGTCCAGATTCACATTTCAAAAAGGATCAATTTACTTGAATTGCCCCTTGAATAGAAGATTAA
127 TACCAACAGATTCACATTTCAAAAAGGATCAATTTACTAGAATTGCCCCTTGAATAGAAGATTAA
10100919 GCT
192 GCT
10100922 C
1 C
10100923 CATAGTTGCA
Statistics
Matches: 173, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
193 22 0.13
196 124 0.72
197 27 0.16
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (194 bp):
CTAGAGAAAATTAATAAAATGCAGAACAAAAGCACAAACCAAATAAACAACAAAAACTTAAAAAG
CAGAAGTTTAATGCACTTCATTATCTTATGACTTAAGAAAAAGGGGACTTCTAATAAATTGTACC
AACAGATTCACATTTCAAAAAGGATCAATTTACTAGAATTGCCCCTTGAATAGAAGATTAAGCT
Found at i:10102143 original size:34 final size:34
Alignment explanation
Indices: 10102083--10102188 Score: 115
Period size: 35 Copynumber: 3.0 Consensus size: 34
10102073 TTTAACAATC
*
10102083 ATTTGTACTACCACTTAAAAAGGCCGTAATTAGGG
1 ATTTGGACTACCACTT-AAAAGGCCGTAATTAGGG
10102118 ATTTGGACTACCACTTAAAAGGCCGTAATTAAGGAG
1 ATTTGGACTACCACTTAAAAGGCCGTAATT-AGG-G
* ** * *
10102154 GTAACGGACTACCACTTAAGA-GCCGTGATTAGGG
1 AT-TTGGACTACCACTTAAAAGGCCGTAATTAGGG
10102188 A
1 A
10102189 GGTAACTGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
34 15 0.25
35 21 0.34
36 10 0.16
37 15 0.25
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (34 bp):
ATTTGGACTACCACTTAAAAGGCCGTAATTAGGG
Found at i:10102190 original size:36 final size:37
Alignment explanation
Indices: 10102089--10102194 Score: 121
Period size: 36 Copynumber: 2.9 Consensus size: 37
10102079 AATCATTTGT
* **
10102089 ACTACCACTTAAAAAGGCCGTAATT-AGG-GAT-TTGG
1 ACTACCACTT-AAAAGGCCGTAATTAAGGAGGTAACGG
10102124 ACTACCACTTAAAAGGCCGTAATTAAGGAGGTAACGG
1 ACTACCACTTAAAAGGCCGTAATTAAGGAGGTAACGG
* * *
10102161 ACTACCACTTAAGA-GCCGTGATTAGGGAGGTAAC
1 ACTACCACTTAAAAGGCCGTAATTAAGGAGGTAAC
10102195 TGAGTTTAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
34 14 0.23
35 13 0.21
36 20 0.32
37 15 0.24
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (37 bp):
ACTACCACTTAAAAGGCCGTAATTAAGGAGGTAACGG
Found at i:10104740 original size:16 final size:19
Alignment explanation
Indices: 10104692--10104741 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
10104682 TTTATTCATA
10104692 TAATAAATTATTGATATAAT
1 TAATAAATTATTGATAT-AT
10104712 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTGATATAT
10104730 TAATAAATTATT
1 TAATAAATTATT
10104742 TAATATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.18
17 2 0.07
18 6 0.21
20 6 0.21
21 4 0.14
22 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTGATATAT
Found at i:10104789 original size:14 final size:14
Alignment explanation
Indices: 10104757--10104797 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
10104747 TTTCAATTTT
10104757 ATTTTAACAATAA-A
1 ATTTTAA-AATAATA
*
10104771 TTTTTAAAATAATA
1 ATTTTAAAATAATA
10104785 ATTTT-AAATAATA
1 ATTTTAAAATAATA
10104798 TTCTTCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTTAAAATAATA
Found at i:10107652 original size:16 final size:16
Alignment explanation
Indices: 10107631--10107684 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
10107621 TTTGGTTCGC
10107631 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
10107647 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGG
10107663 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
10107679 CGTAAT
1 TGTAAT
10107685 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:10107718 original size:45 final size:44
Alignment explanation
Indices: 10107666--10107759 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
10107656 ATAGAGCTGT
* *
10107666 AATGGAATAGAGGC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGA-ACTGTAATAAT-ATTC-ATGTGTTTGGTTGAATGG
* *
10107711 CATGGAATAGAACTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAATATTCATGTGTTTGGTTGAATGG
10107755 AATGG
1 AATGG
10107760 TGTTGTAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 1 0.02
44 24 0.57
45 17 0.40
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAATATTCATGTGTTTGGTTGAATGG
Found at i:10111418 original size:18 final size:18
Alignment explanation
Indices: 10111385--10111437 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
10111375 ACTCATGTAT
* *
10111385 TTATGCTAACTCATGTTA
1 TTATGCGAACCCATGTTA
* *
10111403 TTCTGCGAACCTATGTTA
1 TTATGCGAACCCATGTTA
10111421 TTATGCGAACCCATGTT
1 TTATGCGAACCCATGTT
10111438 GTATGTTATC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (18 bp):
TTATGCGAACCCATGTTA
Found at i:10111442 original size:25 final size:25
Alignment explanation
Indices: 10111414--10111464 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10111404 TCTGCGAACC
*
10111414 TATGTTATTATGCGAACCCATGTTG
1 TATGTTATCATGCGAACCCATGTTG
* * *
10111439 TATGTTATCATGTGGACCTATGTTG
1 TATGTTATCATGCGAACCCATGTTG
10111464 T
1 T
10111465 TGTGCAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (25 bp):
TATGTTATCATGCGAACCCATGTTG
Found at i:10111873 original size:20 final size:20
Alignment explanation
Indices: 10111813--10111874 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
10111803 GGGCATCTAA
* *
10111813 TTGCACATTTGTGCCTCTGA
1 TTGCACATTCGTGCCTCTGT
* *
10111833 TTGCACATTCATGCCTTTGT
1 TTGCACATTCGTGCCTCTGT
10111853 TTGCAC-TTCGGTGCCTCTGT
1 TTGCACATTC-GTGCCTCTGT
10111873 TT
1 TT
10111875 AGCATTTCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.11, C:0.26, G:0.19, T:0.44
Consensus pattern (20 bp):
TTGCACATTCGTGCCTCTGT
Found at i:10112230 original size:43 final size:43
Alignment explanation
Indices: 10112114--10112283 Score: 193
Period size: 43 Copynumber: 3.9 Consensus size: 43
10112104 TAAAATATAT
* * * * *
10112114 GATGATGCAC-TGTGTGTGCCAATATATTTGCTTTGGTTTATCC
1 GATGATGCACTTGTATGTGCCAGTATAGTTGC-TTCGTTTATTC
10112157 GATGATGCACTGTGTATGTGCCAGTATAGTTGCTTCGATTTATTC
1 GATGATGCACT-TGTATGTGCCAGTATAGTTGCTTCG-TTTATTC
*
10112202 GATGATGCA-TTGTATGTGTCAGTATAGTTGCTTCTGTTTATTC
1 GATGATGCACTTGTATGTGCCAGTATAGTTGCTTC-GTTTATTC
* * *
10112245 GATGATGCACAT-TATGTGCTAGTATAGTTACTTCAGTTT
1 GATGATGCACTTGTATGTGCCAGTATAGTTGCTTC-GTTT
10112284 TACCCGATGA
Statistics
Matches: 111, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 72 0.65
44 6 0.05
45 33 0.30
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (43 bp):
GATGATGCACTTGTATGTGCCAGTATAGTTGCTTCGTTTATTC
Found at i:10117824 original size:17 final size:18
Alignment explanation
Indices: 10117802--10117836 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10117792 AACATAATGC
10117802 AAAA-TTGGTATCAATAT
1 AAAATTTGGTATCAATAT
10117819 AAAATTTTGGTATCAATA
1 AAAA-TTTGGTATCAATA
10117837 AAATTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
19 12 0.75
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (18 bp):
AAAATTTGGTATCAATAT
Found at i:10118255 original size:22 final size:22
Alignment explanation
Indices: 10118230--10118276 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10118220 TAGTTCAATA
*
10118230 GAACAGTAAAATTCTCTTGCAT
1 GAACAGTAAAATTCTCTGGCAT
*
10118252 GAACAGTGAAATTCTCTGGCAT
1 GAACAGTAAAATTCTCTGGCAT
10118274 GAA
1 GAA
10118277 TAGAGAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (22 bp):
GAACAGTAAAATTCTCTGGCAT
Found at i:10118291 original size:23 final size:22
Alignment explanation
Indices: 10118240--10118334 Score: 111
Period size: 23 Copynumber: 4.2 Consensus size: 22
10118230 GAACAGTAAA
*
10118240 ATTCTCTTGCATGAACAGTGAA-
1 ATTCTC-TGCATGAATAGTGAAG
*
10118262 ATTCTCTGGCATGAATAGAGAAG
1 ATTCTCT-GCATGAATAGTGAAG
10118285 ATTCTCTGCAATGAATAGTGAAG
1 ATTCTCTGC-ATGAATAGTGAAG
* *
10118308 ATTCTCTACAATGGATAGTGAAG
1 ATTCTCTGC-ATGAATAGTGAAG
10118331 ATTC
1 ATTC
10118335 CTTGAAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.02
22 20 0.31
23 44 0.68
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (22 bp):
ATTCTCTGCATGAATAGTGAAG
Found at i:10134844 original size:7 final size:7
Alignment explanation
Indices: 10134832--10134857 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10134822 TTCATTAAAT
10134832 ATTTAAC
1 ATTTAAC
10134839 ATTTAAC
1 ATTTAAC
10134846 ATTTAAC
1 ATTTAAC
10134853 ATTTA
1 ATTTA
10134858 CTAATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTAAC
Found at i:10143262 original size:9 final size:9
Alignment explanation
Indices: 10143240--10143280 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
10143230 GGGTTATAGT
*
10143240 TTATTATTA
1 TTATTATGA
*
10143249 CTATTATGA
1 TTATTATGA
10143258 TTATTATGA
1 TTATTATGA
10143267 TTATTATGA
1 TTATTATGA
10143276 TTATT
1 TTATT
10143281 TTGGGTAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (9 bp):
TTATTATGA
Found at i:10150483 original size:20 final size:20
Alignment explanation
Indices: 10150460--10150505 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
10150450 TAGGGAGCTT
* *
10150460 GCACTGGTATATGCAGCTAG
1 GCACCGGTATATGCAACTAG
*
10150480 GCACCGGTATCTGCAACTAG
1 GCACCGGTATATGCAACTAG
10150500 GCACCG
1 GCACCG
10150506 TGAGGACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (20 bp):
GCACCGGTATATGCAACTAG
Found at i:10154582 original size:16 final size:16
Alignment explanation
Indices: 10154561--10154594 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10154551 CAATTCAAGT
10154561 TTTTGTTGTCGAATTC
1 TTTTGTTGTCGAATTC
*
10154577 TTTTGTTTTCGAATTC
1 TTTTGTTGTCGAATTC
10154593 TT
1 TT
10154595 CTATTTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.62
Consensus pattern (16 bp):
TTTTGTTGTCGAATTC
Found at i:10160004 original size:10 final size:10
Alignment explanation
Indices: 10159991--10160135 Score: 53
Period size: 10 Copynumber: 14.1 Consensus size: 10
10159981 ATTTTTTTTA
10159991 ATTTTAAAAT
1 ATTTTAAAAT
* *
10160001 ATTTTTTACAT
1 A-TTTTAAAAT
**
10160012 ACTTTTTTAAT
1 A-TTTTAAAAT
* *
10160023 TTTTTTAAAT
1 ATTTTAAAAT
*
10160033 -TTTAAAAAT
1 ATTTTAAAAT
*
10160042 TTTTTAAAAT
1 ATTTTAAAAT
* *
10160052 TTTTTTAAAT
1 ATTTTAAAAT
* ***
10160062 TTTTTTTTA-
1 ATTTTAAAAT
10160071 ATTTTAAAAT
1 ATTTTAAAAT
10160081 ATTTTTAAAAT
1 A-TTTTAAAAT
10160092 ATTTTTAAAAT
1 A-TTTTAAAAT
**
10160103 ACTTTTTTTTAAT
1 A---TTTTAAAAT
*
10160116 TTTTTAAAAT
1 ATTTTAAAAT
10160126 -TTTTAAAAT
1 ATTTTAAAAT
10160135 A
1 A
10160136 AAAATGGGTC
Statistics
Matches: 106, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
9 21 0.20
10 41 0.39
11 36 0.34
13 8 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:10160044 original size:39 final size:40
Alignment explanation
Indices: 10159981--10160118 Score: 158
Period size: 40 Copynumber: 3.4 Consensus size: 40
10159971 ATAAATATAT
*
10159981 ATTTTTTTTAATTTTAAAATATTTTTTACATACTTTTTT-A
1 ATTTTTTTTAATTTTAAAATATTTTTTA-AAACTTTTTTAA
* *
10160021 ATTTTTTTAAATTTTAAAA-ATTTTTTAAAATTTTTTTAA
1 ATTTTTTTTAATTTTAAAATATTTTTTAAAACTTTTTTAA
10160060 ATTTTTTTTTAATTTTAAAATA-TTTTTAAAA-TATTTTTAAAA
1 A-TTTTTTTTAATTTTAAAATATTTTTTAAAACT-TTTTT--AA
10160102 TACTTTTTTTTAATTTT
1 -A-TTTTTTTTAATTTT
10160119 TTAAAATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
38 8 0.09
39 11 0.13
40 49 0.57
41 1 0.01
42 2 0.02
43 15 0.17
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
ATTTTTTTTAATTTTAAAATATTTTTTAAAACTTTTTTAA
Found at i:10160046 original size:11 final size:10
Alignment explanation
Indices: 10160020--10160134 Score: 85
Period size: 10 Copynumber: 11.3 Consensus size: 10
10160010 ATACTTTTTT
*
10160020 AATTTTTTTA
1 AATTTTTTAA
*
10160030 AA-TTTTAAA
1 AATTTTTTAA
10160039 AATTTTTTAA
1 AATTTTTTAA
10160049 AATTTTTTTAA
1 AA-TTTTTTAA
* **
10160060 ATTTTTTTTT
1 AATTTTTTAA
10160070 AA--TTTTAA
1 AATTTTTTAA
10160078 AATATTTTTAA
1 AAT-TTTTTAA
10160089 AATATTTTTAAA
1 AAT-TTTTT-AA
**
10160101 ATACTTTTTTTT
1 A-A-TTTTTTAA
10160113 AATTTTTTAA
1 AATTTTTTAA
10160123 AA-TTTTTAA
1 AATTTTTTAA
10160132 AAT
1 AAT
10160135 AAAAATGGGT
Statistics
Matches: 83, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
8 6 0.07
9 16 0.19
10 25 0.30
11 25 0.30
12 4 0.05
13 6 0.07
14 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:10165151 original size:13 final size:14
Alignment explanation
Indices: 10165119--10165155 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
10165109 GCCATACAAT
10165119 TTATGATATATGTA
1 TTATGATATATGTA
10165133 TGTATGATATATG-A
1 T-TATGATATATGTA
10165147 TTATGATAT
1 TTATGATAT
10165156 GCTTGTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 3 0.14
15 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
TTATGATATATGTA
Found at i:10165429 original size:20 final size:20
Alignment explanation
Indices: 10165406--10165450 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10165396 GTTATGATTC
* *
10165406 GATATAATATGATATGTTAT
1 GATATAATATAATATGTTAA
* *
10165426 GATACATTATAATATGTTAA
1 GATATAATATAATATGTTAA
10165446 GATAT
1 GATAT
10165451 GGTCTATATG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (20 bp):
GATATAATATAATATGTTAA
Found at i:10167097 original size:24 final size:24
Alignment explanation
Indices: 10167061--10167132 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
10167051 GGATCTATGA
* *
10167061 TTGCATCTATATCAGAATTTGCAT
1 TTGCATCTGTATCTGAATTTGCAT
*
10167085 TTGCATTTGTATCTGAATTTG-AT
1 TTGCATCTGTATCTGAATTTGCAT
* *
10167108 TATGCATCTGAATCTGAATATGCAT
1 T-TGCATCTGTATCTGAATTTGCAT
10167133 ATGTATCCGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 3 0.08
24 35 0.88
25 2 0.05
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (24 bp):
TTGCATCTGTATCTGAATTTGCAT
Found at i:10167116 original size:18 final size:18
Alignment explanation
Indices: 10167095--10167132 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10167085 TTGCATTTGT
* *
10167095 ATCTGAATTTGATTATGC
1 ATCTGAATCTGAATATGC
10167113 ATCTGAATCTGAATATGC
1 ATCTGAATCTGAATATGC
10167131 AT
1 AT
10167133 ATGTATCCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (18 bp):
ATCTGAATCTGAATATGC
Found at i:10167147 original size:18 final size:18
Alignment explanation
Indices: 10167105--10167147 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
10167095 ATCTGAATTT
* *
10167105 GATTATGCATCTGAATCT
1 GATTATGCATATGAATCC
* *
10167123 GAATATGCATATGTATCC
1 GATTATGCATATGAATCC
10167141 GATTATG
1 GATTATG
10167148 AAATACACTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (18 bp):
GATTATGCATATGAATCC
Found at i:10171019 original size:18 final size:18
Alignment explanation
Indices: 10170996--10171032 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10170986 GTCTGTAGCG
10170996 GATGGTATTTACATTTGT
1 GATGGTATTTACATTTGT
10171014 GATGGTATTTACATTTGT
1 GATGGTATTTACATTTGT
10171032 G
1 G
10171033 TTTGTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (18 bp):
GATGGTATTTACATTTGT
Found at i:10173409 original size:16 final size:16
Alignment explanation
Indices: 10173388--10173423 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10173378 TTTGGTTCGC
10173388 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10173404 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10173420 TGTA
1 TGTA
10173424 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:10173488 original size:44 final size:45
Alignment explanation
Indices: 10173404--10173494 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
10173394 GGATTAGAGG
* * *
10173404 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
10173449 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
10173493 TG
1 TG
10173495 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:10173680 original size:18 final size:17
Alignment explanation
Indices: 10173659--10173693 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
10173649 TTATTATTAA
10173659 ATATATTTTAATTAAAAT
1 ATATATTTTAA-TAAAAT
10173677 ATATATTTTAATAAAAT
1 ATATATTTTAATAAAAT
10173694 TATTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATTTTAATAAAAT
Found at i:10173830 original size:156 final size:157
Alignment explanation
Indices: 10173546--10173861 Score: 544
Period size: 156 Copynumber: 2.0 Consensus size: 157
10173536 TAGAATACCC
10173546 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
10173611 TTGTCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAA
*
10173676 TATATATTTTAATAAAATTATT-ATAA
131 TATATAATTTAATAAAATTATTAATAA
*
10173702 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
10173767 TTATCAATAATAAATAATTTAATCATATTTAAACATATTTTTTATTAAACATATTTTAATTAAAA
66 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAA
*
10173832 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTATTAATAA
10173859 TTA
1 TTA
10173862 ATATTCTTAT
Statistics
Matches: 150, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
156 143 0.95
157 7 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (157 bp):
TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAA
TATATAATTTAATAAAATTATTAATAA
Found at i:10173834 original size:14 final size:15
Alignment explanation
Indices: 10173795--10173834 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10173785 TTAATCATAT
*
10173795 TTAAACATATTTTTTA
1 TTAAACATA-TTTTAA
10173811 TTAAACATATTTTAA
1 TTAAACATATTTTAA
10173826 TTAAA-ATAT
1 TTAAACATAT
10173835 ATAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.17
15 10 0.43
16 9 0.39
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAACATATTTTAA
Found at i:10173978 original size:26 final size:27
Alignment explanation
Indices: 10173904--10173984 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 27
10173894 ATATGATACT
* *
10173904 ATAATTAATATT-AATATATTTTAATTA
1 ATAATTATTATTAAATATAATTTAA-TA
* *
10173931 A-AATATATGATTAAATACAATTTAA-A
1 ATAAT-TATTATTAAATATAATTTAATA
*
10173957 ATAATTATTATTAAATATAATTTCATA
1 ATAATTATTATTAAATATAATTTAATA
10173984 A
1 A
10173985 AATGTTCTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
26 22 0.51
27 11 0.26
28 10 0.23
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (27 bp):
ATAATTATTATTAAATATAATTTAATA
Found at i:10177799 original size:93 final size:93
Alignment explanation
Indices: 10177701--10177980 Score: 243
Period size: 93 Copynumber: 3.1 Consensus size: 93
10177691 TACAAATAAT
10177701 ATATATTAAAAGTCATTTAAGTTCATCAATTTGGTTATGAAAATTTATATTTTGATAACTGACCA
1 ATATATTAAAAGTCATTTAAGTTCATCAATTTGGTTATGAAAATTTATATTTTGATAACTGACCA
10177766 ACTTAACTTTTTTTAATACAATACTGCA
66 ACTTAACTTTTTTTAATACAATACTGCA
** * * * * * * * *
10177794 ATATATT-TGACT-TTTTGA-TT--TAAATTT--ATATG--TATTATATATTTATTAT-A-TTA-
1 ATATATTAAAAGTCATTTAAGTTCATCAATTTGGTTATGAAAATT-TATATTT-TGATAACTGAC
* * * * *
10177847 TAA-AT-A-TATTTTTAA-AAAATTACAAAT-AA
64 CAACTTAACTTTTTTTAATACAA-TAC---TGCA
10177876 TATATATTAAAAGTCATTTAAGTTCATCAATTTGGTTATGAAAATTTATATTTTGATAACTGACC
1 -ATATATTAAAAGTCATTTAAGTTCATCAATTTGGTTATGAAAATTTATATTTTGATAACTGACC
10177941 AACTTAACTTTTTTTAATACAATACTGCA
65 AACTTAACTTTTTTTAATACAATACTGCA
10177970 ATATATTAAAA
1 ATATATTAAAA
10177981 CCTTTCCCGA
Statistics
Matches: 133, Mismatches: 30, Indels: 48
0.63 0.14 0.23
Matches are distributed among these distances:
79 3 0.02
80 11 0.08
81 1 0.01
82 2 0.02
83 10 0.08
84 7 0.05
85 12 0.09
86 9 0.07
88 12 0.09
90 9 0.07
91 12 0.09
92 7 0.05
93 21 0.16
94 2 0.02
95 1 0.01
96 11 0.08
97 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (93 bp):
ATATATTAAAAGTCATTTAAGTTCATCAATTTGGTTATGAAAATTTATATTTTGATAACTGACCA
ACTTAACTTTTTTTAATACAATACTGCA
Found at i:10177901 original size:176 final size:176
Alignment explanation
Indices: 10177607--10177976 Score: 740
Period size: 176 Copynumber: 2.1 Consensus size: 176
10177597 AGTATAAAAA
10177607 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
1 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
10177672 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
66 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
10177737 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
131 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
10177783 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
1 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
10177848 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
66 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
10177913 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
131 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
10177959 ACAATACTGCAATATATT
1 ACAATACTGCAATATATT
10177977 AAAACCTTTC
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 194 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (176 bp):
ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
Found at i:10181176 original size:82 final size:82
Alignment explanation
Indices: 10181090--10181242 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 82
10181080 TACAACACAT
* * *
10181090 CGGCACGAAACCTGCTAGACACAAAGCCTGATATAATACACCAG-CACGAAGCCTACTAGGCTCA
1 CGGCACGAAACCTGATAGACACAAAGCCTGATATAATACA-CAGACACGAAGCCTACTAAGCACA
10181154 AAGCCTATTACGGTACAC
65 AAGCCTATTACGGTACAC
** * *
10181172 CGGCACGAAGTCTGATAGGCACAAAGCCTGATATAATACACTGACACGAAGCCTACTAAGCACAA
1 CGGCACGAAACCTGATAGACACAAAGCCTGATATAATACACAGACACGAAGCCTACTAAGCACAA
10181237 AGCCTA
66 AGCCTA
10181243 ATAATATACA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 2 0.03
82 61 0.97
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.16
Consensus pattern (82 bp):
CGGCACGAAACCTGATAGACACAAAGCCTGATATAATACACAGACACGAAGCCTACTAAGCACAA
AGCCTATTACGGTACAC
Found at i:10181222 original size:41 final size:41
Alignment explanation
Indices: 10181034--10181266 Score: 142
Period size: 41 Copynumber: 5.7 Consensus size: 41
10181024 ATATAACTTA
* * * * * *
10181034 CCTGATACAATACACCGACACAAAGACTGCTAGGCTC-AAG
1 CCTGATATAATACACTGACACGAAGCCTGATAGGCACAAAG
* * * * * *
10181074 ACCTGATACAACACA-TCGGCACGAAACCTGCTAGACACAAAG
1 -CCTGATATAATACACT-GACACGAAGCCTGATAGGCACAAAG
* *
10181116 CCTGATATAATACAC-CAGCACGAAGCCT-ACTAGGCTCAAAG
1 CCTGATATAATACACTGA-CACGAAGCCTGA-TAGGCACAAAG
* * * *
10181157 CCT-AT-TACGGTACACCGGCACGAAGTCTGATAGGCACAAAG
1 CCTGATATA--ATACACTGACACGAAGCCTGATAGGCACAAAG
*
10181198 CCTGATATAATACACTGACACGAAGCCT-ACTAAGCACAAAG
1 CCTGATATAATACACTGACACGAAGCCTGA-TAGGCACAAAG
* *
10181239 CCTAATA-ATATACATTG-CACGAAGCCTG
1 CCTGATATA-ATACACTGACACGAAGCCTG
10181267 TTGGATTCAA
Statistics
Matches: 150, Mismatches: 28, Indels: 28
0.73 0.14 0.14
Matches are distributed among these distances:
39 2 0.01
40 14 0.09
41 126 0.84
42 6 0.04
43 2 0.01
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.17
Consensus pattern (41 bp):
CCTGATATAATACACTGACACGAAGCCTGATAGGCACAAAG
Found at i:10186659 original size:29 final size:29
Alignment explanation
Indices: 10186572--10186660 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
10186562 ATATTTAGAA
* *
10186572 TTTTTTATTTAAGT-TACTGAACTATTCGAAA
1 TTTTTTATTTAAGTCT-CTAAACTATT--AAT
* * *** *
10186603 GTTTTTATTTAAGTCTTTAGGTTGTTAAT
1 TTTTTTATTTAAGTCTCTAAACTATTAAT
10186632 TTTTTTATTTAAGTCTCTAAACTATTAAT
1 TTTTTTATTTAAGTCTCTAAACTATTAAT
10186661 AAGTTTGACT
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
29 25 0.58
31 17 0.40
32 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (29 bp):
TTTTTTATTTAAGTCTCTAAACTATTAAT
Found at i:10188504 original size:17 final size:17
Alignment explanation
Indices: 10188482--10188521 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
10188472 TATTTTTATT
10188482 TTTTATCTCCCCTTCTC
1 TTTTATCTCCCCTTCTC
*
10188499 TTTTATCTCCCCTTTTC
1 TTTTATCTCCCCTTCTC
10188516 TTTTAT
1 TTTTAT
10188522 TATTCTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTATCTCCCCTTCTC
Found at i:10197234 original size:21 final size:21
Alignment explanation
Indices: 10197204--10197251 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 21
10197194 AACCCAATAA
10197204 GCAAGAAAAATGAACATCAATG
1 GCAA-AAAAATGAACATCAATG
10197226 GCAAAAAAATGAACATCAATG
1 GCAAAAAAATGAACATCAATG
10197247 GCAAA
1 GCAAA
10197252 CACAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (21 bp):
GCAAAAAAATGAACATCAATG
Found at i:10197772 original size:22 final size:23
Alignment explanation
Indices: 10197746--10197790 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
10197736 CATGATAGTG
10197746 GTATCACGACACCCAT-ACAATA
1 GTATCACGACACCCATGACAATA
** *
10197768 GTATCGTGAGACCCATGACAATA
1 GTATCACGACACCCATGACAATA
10197791 TGGAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.20
Consensus pattern (23 bp):
GTATCACGACACCCATGACAATA
Found at i:10205451 original size:15 final size:16
Alignment explanation
Indices: 10205421--10205453 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10205411 GGGGTAACAT
10205421 ATAAATTCTATTTTAA
1 ATAAATTCTATTTTAA
*
10205437 ATAAATT-TGTTTTAA
1 ATAAATTCTATTTTAA
10205452 AT
1 AT
10205454 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (16 bp):
ATAAATTCTATTTTAA
Found at i:10237867 original size:49 final size:47
Alignment explanation
Indices: 10237807--10238395 Score: 822
Period size: 47 Copynumber: 12.6 Consensus size: 47
10237797 GATAATTGTG
* * *
10237807 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10237854 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
10237901 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10237950 A--T----GTG-A-A-A-GTG-TAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
10237986 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10238035 ATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
10238084 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10238131 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10238180 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCTATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10238229 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10238276 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
10238323 ATGTGAAAATGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10238370 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
10238396 TCCCGAAGGG
Statistics
Matches: 490, Mismatches: 33, Indels: 38
0.87 0.06 0.07
Matches are distributed among these distances:
36 25 0.05
37 3 0.01
38 2 0.00
39 1 0.00
40 1 0.00
42 3 0.01
43 3 0.01
45 1 0.00
46 1 0.00
47 242 0.49
48 6 0.01
49 197 0.40
50 3 0.01
51 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:10237914 original size:96 final size:96
Alignment explanation
Indices: 10237807--10238395 Score: 847
Period size: 96 Copynumber: 6.3 Consensus size: 96
10237797 GATAATTGTG
*
10237807 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
10237870 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
10237901 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA--T----GTG-A-A-
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
10237957 A-GTG-TAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
*
10237986 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTGTAT
*
10238051 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
10238084 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
10238147 ATATGTGATAAGGCCTAATGGTCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
*
10238180 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
10238245 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
10238276 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
10238339 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
10238370 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
10238396 TCCCGAAGGG
Statistics
Matches: 451, Mismatches: 23, Indels: 42
0.87 0.04 0.08
Matches are distributed among these distances:
85 75 0.17
86 3 0.01
87 2 0.00
88 1 0.00
89 1 0.00
90 3 0.01
93 2 0.00
94 101 0.22
95 7 0.02
96 173 0.38
97 3 0.01
98 80 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:10237966 original size:36 final size:36
Alignment explanation
Indices: 10237925--10237998 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
10237915 ATATATGTGA
*
10237925 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
10237961 TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
10237997 TA
1 TA
10237999 TATATATGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.34, T:0.24
Consensus pattern (36 bp):
TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:10252311 original size:13 final size:14
Alignment explanation
Indices: 10252286--10252314 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10252276 ATAATAAGAA
10252286 AATAAATAAACAAG
1 AATAAATAAACAAG
10252300 AATAAA-AAACAAG
1 AATAAATAAACAAG
10252313 AA
1 AA
10252315 ATCAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (14 bp):
AATAAATAAACAAG
Found at i:10253076 original size:59 final size:59
Alignment explanation
Indices: 10252979--10253103 Score: 232
Period size: 59 Copynumber: 2.1 Consensus size: 59
10252969 TGTCCATTTA
10252979 TGGACTTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
1 TGGA-TTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
*
10253039 TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCGAGCTTAAATT
1 TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
10253098 TGGATT
1 TGGATT
10253104 GTGCAAACCA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 60 0.94
60 4 0.06
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (59 bp):
TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
Found at i:10255897 original size:20 final size:19
Alignment explanation
Indices: 10255833--10255929 Score: 59
Period size: 21 Copynumber: 4.8 Consensus size: 19
10255823 AGGGGTACCA
*
10255833 AAGTACAAATAGGGGCACAT
1 AAGTACAAATAGGGGCAC-G
* * * *
10255853 AAATGCAATTCAGGGGTACAG
1 AAGTACAAAT-AGGGGCAC-G
10255874 AAGTACAAATAGGGGCACG
1 AAGTACAAATAGGGGCACG
* * *
10255893 TAAGTGCAATTCAGGGGTACCG
1 -AAGTACAAAT-AGGGGCA-CG
*
10255915 AAGTACAAACAGGGG
1 AAGTACAAATAGGGG
10255930 ATAATTAACA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
19 1 0.02
20 27 0.47
21 28 0.48
22 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.15
Consensus pattern (19 bp):
AAGTACAAATAGGGGCACG
Found at i:10255929 original size:41 final size:41
Alignment explanation
Indices: 10255721--10255929 Score: 274
Period size: 41 Copynumber: 5.1 Consensus size: 41
10255711 AAGTGTAACC
*
10255721 GGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAATA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
* ** * ** * **
10255762 AGGGCGTATAAGTGCAATTTAGCAGTACCAAAGTACAAGCA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
* *
10255803 GGGACACATAAGTGCAATTCAGGGGTACCAAAGTACAAATA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
* *
10255844 GGGGCACATAAATGCAATTCAGGGGTACAGAAGTACAAATA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
* *
10255885 GGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAACA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
10255926 GGGG
1 GGGG
10255930 ATAATTAACA
Statistics
Matches: 141, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (41 bp):
GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
Found at i:10256134 original size:17 final size:17
Alignment explanation
Indices: 10256114--10256151 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10256104 AATTAAATAT
10256114 TTCAA-TCAATCTCAAAA
1 TTCAATTCAATC-CAAAA
*
10256131 TTCAATTCAATCCATAA
1 TTCAATTCAATCCAAAA
10256148 TTCA
1 TTCA
10256152 CATTTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (17 bp):
TTCAATTCAATCCAAAA
Found at i:10268502 original size:32 final size:32
Alignment explanation
Indices: 10268457--10268525 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
10268447 CGTCCCTGCT
*
10268457 TTGT-AAGGATGTTGAGTATTGGGGTTCATAC
1 TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
*
10268488 TTGTCAAGGATGTTGAGAATTGGGGTTCATAT
1 TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
10268520 TTGTCA
1 TTGTCA
10268526 CTCATTATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.39
Consensus pattern (32 bp):
TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
Found at i:10277794 original size:138 final size:137
Alignment explanation
Indices: 10277522--10277873 Score: 571
Period size: 138 Copynumber: 2.6 Consensus size: 137
10277512 ACATGGATAA
10277522 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
10277587 -AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAATTAATATTATTTCGGAA
66 TAAAAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTATTTCGGAA
*
10277651 TGAATAT
131 AGAATAT
* * *
10277658 AATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTATCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * **
10277723 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTTGA
66 TAAA-AGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTATTTCGGA
10277788 AAGAATAT
130 AAGAATAT
* *
10277796 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATGTTTTACCGAATTTGTTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
10277861 TAAATAGTTATAT
66 TAAA-AGTTATAT
10277874 CACTACACCA
Statistics
Matches: 198, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
136 62 0.31
137 3 0.02
138 133 0.67
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (137 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAAAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTATTTCGGAA
AGAATAT
Found at i:10278011 original size:39 final size:39
Alignment explanation
Indices: 10277923--10278018 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 39
10277913 CGTTTGGATA
* * * *
10277923 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAA-AATAAGCATTAGCGGCGCTTTTTC
*
10277963 GAAAACGCCGCTAAAAATAAGCATTAGCGGCG-TTTTTC
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTC
*
10278001 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
10278019 CCTAAGCCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 9 0.19
39 25 0.52
40 14 0.29
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTC
Found at i:10278122 original size:41 final size:41
Alignment explanation
Indices: 10278061--10278233 Score: 192
Period size: 41 Copynumber: 4.2 Consensus size: 41
10278051 AGGATTTTGT
*
10278061 GGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGTTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAATGCTCAGGGTTTTAGC
10278102 GGCGTTTTTTGTAAAA-CGCCGCTAATGCTCA-GGTATTTAGC
1 GGCGTTTTTT-TAAAAGCGCCGCTAATGCTCAGGGT-TTTAGC
* * *
10278143 GGCG-TTTTTTAAAATGCGCCACTAATGCTTAGGATTTTAGC
1 GGCGTTTTTTTAAAA-GCGCCGCTAATGCTCAGGGTTTTAGC
* * * **
10278184 GGCGTTTTTTAAAAAGTGCCACTAATAATCA-GGTCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAATGCTCAGGGT-TTTAGC
*
10278225 GACGTTTTT
1 GGCGTTTTT
10278234 AAAGCGCCAT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
39 5 0.04
40 10 0.09
41 84 0.74
42 15 0.13
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTTTAAAAGCGCCGCTAATGCTCAGGGTTTTAGC
Found at i:10278209 original size:82 final size:82
Alignment explanation
Indices: 10278061--10278233 Score: 231
Period size: 82 Copynumber: 2.1 Consensus size: 82
10278051 AGGATTTTGT
* * * *
10278061 GGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTTGTAAAACGCCGCTA
1 GGCGTTTTTTAAAAAGCGCCACTAATGCTCAGGATTTTAGCGGCGTTTTTTGAAAAACGCCACTA
**
10278126 ATGCTCAGGTATTTAGC
66 ATAATCAGGTATTTAGC
* * *
10278143 GGCGTTTTTTAAAATGCGCCACTAATGCTTAGGATTTTAGCGGCGTTTTTT-AAAAAGTGCCACT
1 GGCGTTTTTTAAAAAGCGCCACTAATGCTCAGGATTTTAGCGGCGTTTTTTGAAAAA-CGCCACT
*
10278207 AATAATCAGGTCTTTAGC
65 AATAATCAGGTATTTAGC
*
10278225 GACGTTTTT
1 GGCGTTTTT
10278234 AAAGCGCCAT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 4 0.05
82 75 0.95
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (82 bp):
GGCGTTTTTTAAAAAGCGCCACTAATGCTCAGGATTTTAGCGGCGTTTTTTGAAAAACGCCACTA
ATAATCAGGTATTTAGC
Found at i:10279087 original size:7 final size:8
Alignment explanation
Indices: 10279061--10279086 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10279051 TTACTTGTCA
10279061 TTTCTGAT
1 TTTCTGAT
10279069 TTTCTGAT
1 TTTCTGAT
10279077 TTTCTGAT
1 TTTCTGAT
10279085 TT
1 TT
10279087 CAGTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTCTGAT
Found at i:10280373 original size:20 final size:21
Alignment explanation
Indices: 10280337--10280376 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10280327 ATATATCTCA
*
10280337 TTTTAACATATATAAAATAAT
1 TTTTAACAAATATAAAATAAT
10280358 TTTTAACAAATA-AAAATAA
1 TTTTAACAAATATAAAATAA
10280377 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTTAACAAATATAAAATAAT
Found at i:10281381 original size:16 final size:16
Alignment explanation
Indices: 10281360--10281390 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10281350 TGTAACTTAT
10281360 CTGATGTTTACAATAA
1 CTGATGTTTACAATAA
10281376 CTGATGTTTACAATA
1 CTGATGTTTACAATA
10281391 GCTTGGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
CTGATGTTTACAATAA
Found at i:10282404 original size:17 final size:19
Alignment explanation
Indices: 10282366--10282403 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10282356 AATAAAACAT
*
10282366 AATATAATATTTATATAAA
1 AATATAATATTTAAATAAA
10282385 AATA-AATATTTAAATAAA
1 AATATAATATTTAAATAAA
10282403 A
1 A
10282404 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATATAATATTTAAATAAA
Found at i:10282596 original size:42 final size:43
Alignment explanation
Indices: 10282422--10282694 Score: 223
Period size: 43 Copynumber: 6.3 Consensus size: 43
10282412 ATGTTATGTT
* * * * * *
10282422 TTTAGCGGCGTTTTTGCGAGAAGCGACGCTAAAG-GCTTG-TT
1 TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGATCGTGATC
* * * * * * *
10282463 TTATAGCGGCGTTTGTGGCAAAAAGTGTCACTAAAGATCATGACC
1 TT-TAGCGGCGTTT-TTGCTAAAAGCGCCGCTAAAGATCGTGATC
* * * * * *
10282508 TTTAGCGGCGTCTGTGATAAAAAGCACCGCTAAAGCTTGTGATC
1 TTTAGCGGCGTTTTTGCT-AAAAGCGCCGCTAAAGATCGTGATC
* *
10282552 TTTAGCGGCGTTTTTG-TAAAAGCGCCGCTAAAGGTCGTGTTC
1 TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGATCGTGATC
* * * *
10282594 TTTAGCGGCGTTTTTTG-TAAAGGCGCTGCTAAAGTTCATGATC
1 TTTAGCGGCG-TTTTTGCTAAAAGCGCCGCTAAAGATCGTGATC
* *
10282637 TTTAGCGGCGTTTGTGGC-AAAAGCGCCGCTAAAGACCGTGATC
1 TTTAGCGGCGTTT-TTGCTAAAAGCGCCGCTAAAGATCGTGATC
10282680 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
10282695 TCACATAAAC
Statistics
Matches: 183, Mismatches: 41, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.01
42 46 0.25
43 89 0.49
44 44 0.24
45 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGATCGTGATC
Found at i:10282691 original size:86 final size:88
Alignment explanation
Indices: 10282466--10282695 Score: 263
Period size: 86 Copynumber: 2.6 Consensus size: 88
10282456 GCTTGTTTTA
* * * * * * *
10282466 TAGCGGCGTTTGTGGCAAAAAGTGTCACTAAAGATCATGACCTTTAGCGGCG-TCTGTGATAAAA
1 TAGCGGCGTTTGTGGC-AAAAGCGCCGCTAAAGATCGTGATCTTTAGCGGCGTTTTTTGATAAAA
*
10282530 AGCACCGCTAAAGCTTGTGATCTT
65 AGCACCGCTAAAGCTTATGATCTT
* * * * *
10282554 TAGCGGCGTTT-TTGTAAAAGCGCCGCTAAAGGTCGTGTTCTTTAGCGGCGTTTTTTG-T-AAAG
1 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCGTGATCTTTAGCGGCGTTTTTTGATAAAAA
* *
10282616 GCGCTGCTAAAG-TTCATGATCTT
66 GCACCGCTAAAGCTT-ATGATCTT
*
10282639 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGACCGTGATCTTTAGCGGCGTTTTTT
1 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCGTGATCTTTAGCGGCGTTTTTT
10282696 CACATAAACG
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.02
85 31 0.26
86 69 0.58
87 6 0.05
88 11 0.09
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (88 bp):
TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCGTGATCTTTAGCGGCGTTTTTTGATAAAAA
GCACCGCTAAAGCTTATGATCTT
Found at i:10283119 original size:75 final size:75
Alignment explanation
Indices: 10282992--10283138 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 75
10282982 ATGAAAATTA
*
10282992 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGTCTTCTCTATTAAT-AAG
1 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGCCTTCTCTATTAATAAAG
10283056 GAAATAATGCT
66 G-AATAATGCT
* *
10283067 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCCATTTT-CCTTCTCTATTAATAAA
1 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCC-TTTTGCCTTCTCTATTAATAAA
10283131 GGAATAAT
65 GGAATAAT
10283139 CTTGGTTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
75 59 0.88
76 8 0.12
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGCCTTCTCTATTAATAAAG
GAATAATGCT
Found at i:10283711 original size:17 final size:17
Alignment explanation
Indices: 10283689--10283721 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10283679 ATGAATGAAA
10283689 AAATGTTAG-GGCAATTG
1 AAATGTT-GTGGCAATTG
10283706 AAATGTTGTGGCAATT
1 AAATGTTGTGGCAATT
10283722 CTCAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (17 bp):
AAATGTTGTGGCAATTG
Found at i:10286757 original size:30 final size:30
Alignment explanation
Indices: 10286706--10286774 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
10286696 ATTGCATACA
* * * *
10286706 AAAACGGATGGCTTCGGCTATC-GATCTATC
1 AAAAGGGATAGCTTCGACTATCAAAT-TATC
*
10286736 AAAAGGGATAGCTTCGACTATCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATC
10286766 AAAAGGGAT
1 AAAAGGGAT
10286775 GGCGACGACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (30 bp):
AAAAGGGATAGCTTCGACTATCAAATTATC
Found at i:10286831 original size:30 final size:30
Alignment explanation
Indices: 10286736--10286834 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 30
10286726 TCGATCTATC
* ** *
10286736 AAAAGGGATAGCTTCGACTATCAAATTATG
1 AAAAGGGATGGCAACGACCATCAAATTATG
* * *
10286766 AAAAGGGATGGCGACGA-CACTCGAATAATG
1 AAAAGGGATGGCAACGACCA-TCAAATTATG
* *
10286796 TAAAGGGATGGTAACGACCATCAAATTATG
1 AAAAGGGATGGCAACGACCATCAAATTATG
10286826 AAAAGGGAT
1 AAAAGGGAT
10286835 AACTTTGGTT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 1 0.02
30 52 0.95
31 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (30 bp):
AAAAGGGATGGCAACGACCATCAAATTATG
Found at i:10300955 original size:50 final size:50
Alignment explanation
Indices: 10300880--10301072 Score: 314
Period size: 50 Copynumber: 3.8 Consensus size: 50
10300870 ATTTGGGTAA
10300880 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
10300930 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * *
10300980 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
10301030 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
10301073 TGTTATTATC
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 98 0.74
51 34 0.26
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:10309707 original size:22 final size:21
Alignment explanation
Indices: 10309661--10309707 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
10309651 TTACATCTCA
*
10309661 AAAAATTATAAAAAAAAACTT
1 AAAAATTATAAAAAAAAACTC
* *
10309682 AAAAATATATAAAAGAATACTC
1 AAAAAT-TATAAAAAAAAACTC
10309704 AAAA
1 AAAA
10309708 CCCTACACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAATTATAAAAAAAAACTC
Found at i:10310531 original size:14 final size:14
Alignment explanation
Indices: 10310512--10310542 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10310502 CAAATCACCA
10310512 GGCCAGTTTGGTTG
1 GGCCAGTTTGGTTG
10310526 GGCCAGTTTGGTTG
1 GGCCAGTTTGGTTG
10310540 GGC
1 GGC
10310543 TAAATGACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.16, G:0.45, T:0.32
Consensus pattern (14 bp):
GGCCAGTTTGGTTG
Found at i:10315657 original size:14 final size:14
Alignment explanation
Indices: 10315638--10315668 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10315628 CAAATCACCA
10315638 GGCCAGTTTGGTTG
1 GGCCAGTTTGGTTG
10315652 GGCCAGTTTGGTTG
1 GGCCAGTTTGGTTG
10315666 GGC
1 GGC
10315669 TAAATGACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.16, G:0.45, T:0.32
Consensus pattern (14 bp):
GGCCAGTTTGGTTG
Found at i:10316673 original size:40 final size:41
Alignment explanation
Indices: 10316597--10316674 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
10316587 TTTTCTAAAA
*
10316597 ATATTTAAATATTAATATAAAATATTATAATGTTAACATTC
1 ATATTTAAATATTAATATAAAATAATATAATGTTAACATTC
* ** * *
10316638 ATATTT-AATATTTATATTTAATAATCTAATTTTAACA
1 ATATTTAAATATTAATATAAAATAATATAATGTTAACA
10316675 ATAAATGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
40 25 0.81
41 6 0.19
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (41 bp):
ATATTTAAATATTAATATAAAATAATATAATGTTAACATTC
Found at i:10316822 original size:25 final size:25
Alignment explanation
Indices: 10316794--10316851 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
10316784 TAATATATAA
* ** *
10316794 TTAAAAATATATTTATATTAATATT
1 TTAAAAATAAATACATATTAAAATT
10316819 TTAAAAATAAATACATATTAAAATT
1 TTAAAAATAAATACATATTAAAATT
10316844 TTAAAAAT
1 TTAAAAAT
10316852 TTTAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTAAAAATAAATACATATTAAAATT
Found at i:10317074 original size:18 final size:17
Alignment explanation
Indices: 10317034--10317081 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
10317024 TATTATTAAG
*
10317034 TTTA-TATAAGATATTA
1 TTTATTATAAAATATTA
10317050 TTTATTATAAAATATTA
1 TTTATTATAAAATATTA
10317067 TCTTATTATAAAATA
1 T-TTATTATAAAATA
10317082 AATTTTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 4 0.14
17 12 0.41
18 13 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTATTATAAAATATTA
Found at i:10322031 original size:17 final size:17
Alignment explanation
Indices: 10322000--10322033 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10321990 CCATCTGGTG
**
10322000 AACTCTAGGTTTTGGCA
1 AACTCTAGGGATTGGCA
10322017 AACTCTAGGGATTGGCA
1 AACTCTAGGGATTGGCA
10322034 GACTTTTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (17 bp):
AACTCTAGGGATTGGCA
Found at i:10332054 original size:29 final size:30
Alignment explanation
Indices: 10332020--10332083 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
10332010 GTTGAATGTG
*
10332020 TAATTTTAT-TCATG-AATTTTGATTTTATA
1 TAATTTTATAT-ATGAAATTTTGATTTGATA
*
10332049 TAATTTTATATATGAAATTTTGATTTGATT
1 TAATTTTATATATGAAATTTTGATTTGATA
10332079 TAATT
1 TAATT
10332084 CTCACAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (30 bp):
TAATTTTATATATGAAATTTTGATTTGATA
Found at i:10334582 original size:21 final size:22
Alignment explanation
Indices: 10334558--10334614 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 22
10334548 ACATAGGTTG
*
10334558 CAAGTCTCGAGACTTAGGC-AA
1 CAAGTCTCGAGACTTAGCCTAA
* * * *
10334579 CAAGTATCAAGGCTTTGCCTAA
1 CAAGTCTCGAGACTTAGCCTAA
10334601 -AAGTCTCGAGACTT
1 CAAGTCTCGAGACTT
10334615 CGACTATAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (22 bp):
CAAGTCTCGAGACTTAGCCTAA
Found at i:10337155 original size:20 final size:21
Alignment explanation
Indices: 10337132--10337187 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
10337122 TTAAAATTAA
*
10337132 TAAAACTTGATTAA-TTAAAT
1 TAAAACTTAATTAACTTAAAT
*
10337152 TAAACCTTAATTAACTT-AAT
1 TAAAACTTAATTAACTTAAAT
10337172 GCT-AAACTTAATTAAC
1 --TAAAACTTAATTAAC
10337188 CAAATGTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 15 0.50
21 14 0.47
22 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAAACTTAATTAACTTAAAT
Found at i:10337193 original size:21 final size:22
Alignment explanation
Indices: 10337152--10337193 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10337142 TTAATTAAAT
**
10337152 TAAACCTTAATTAACTTAATGC
1 TAAACCTTAATTAACCAAATGC
10337174 TAAA-CTTAATTAACCAAATG
1 TAAACCTTAATTAACCAAATG
10337194 TTAGTGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (22 bp):
TAAACCTTAATTAACCAAATGC
Found at i:10343408 original size:5 final size:5
Alignment explanation
Indices: 10343398--10343433 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
10343388 AAAACTCTCC
10343398 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
10343434 TTATATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:10343609 original size:15 final size:15
Alignment explanation
Indices: 10343591--10343626 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10343581 GCAATAAAAA
10343591 TTCAGTACTTAAATT
1 TTCAGTACTTAAATT
* *
10343606 TTCAGCACTTAGATT
1 TTCAGTACTTAAATT
10343621 TTCAGT
1 TTCAGT
10343627 TTATCAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (15 bp):
TTCAGTACTTAAATT
Found at i:10354505 original size:22 final size:21
Alignment explanation
Indices: 10354477--10354518 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
10354467 TGAATGGGGA
*
10354477 AGTGGAAGGATGGAAAGAGTAG
1 AGTGGAAAGATGGAAA-AGTAG
10354499 AGTGGAAAGATGGAAAAGTA
1 AGTGGAAAGATGGAAAAGTA
10354519 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.14
Consensus pattern (21 bp):
AGTGGAAAGATGGAAAAGTAG
Found at i:10365682 original size:18 final size:18
Alignment explanation
Indices: 10365655--10365700 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
10365645 GCCTACATAT
* *
10365655 ATGTGCGAACTATATGAA
1 ATGTGAGAACTACATGAA
*
10365673 ATGTGAGAACTACATGAT
1 ATGTGAGAACTACATGAA
*
10365691 ATGTGTGAAC
1 ATGTGAGAAC
10365701 CCATATACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (18 bp):
ATGTGAGAACTACATGAA
Found at i:10374512 original size:12 final size:11
Alignment explanation
Indices: 10374483--10374521 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
10374473 ATTTGGTCCC
*
10374483 TTTTTATTT-C
1 TTTTTATTTAT
10374493 TTTTTATTTAT
1 TTTTTATTTAT
10374504 TTATTTATTTAT
1 TT-TTTATTTAT
10374516 TTTTTA
1 TTTTTA
10374522 ATTAAATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:10394014 original size:17 final size:17
Alignment explanation
Indices: 10393988--10394037 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
10393978 CATGGGCTGG
10393988 CACATGGGCGTGTGGCT
1 CACATGGGCGTGTGGCT
*
10394005 CACATAGGCGTGTGGCT
1 CACATGGGCGTGTGGCT
*
10394022 CACACGGGCGTGTGGC
1 CACATGGGCGTGTGGC
10394038 CAGCCCATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.20
Consensus pattern (17 bp):
CACATGGGCGTGTGGCT
Found at i:10394120 original size:10 final size:11
Alignment explanation
Indices: 10394096--10394126 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10394086 ATTTATCTGA
10394096 TTTTGGCTCGT
1 TTTTGGCTCGT
10394107 TTTTGGCTCGT
1 TTTTGGCTCGT
*
10394118 TTTTAGCTC
1 TTTTGGCTC
10394127 CTTTCACTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.03, C:0.19, G:0.23, T:0.55
Consensus pattern (11 bp):
TTTTGGCTCGT
Found at i:10397480 original size:6 final size:6
Alignment explanation
Indices: 10397464--10397519 Score: 85
Period size: 6 Copynumber: 9.2 Consensus size: 6
10397454 TGAAAATGAA
*
10397464 TCATTT CTCATTT TCATTT TCATTT TCATTT TCATTT TCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
*
10397513 CCATTT T
1 TCATTT T
10397520 GAGAAAACCA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 41 0.87
7 6 0.13
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.62
Consensus pattern (6 bp):
TCATTT
Found at i:10397638 original size:19 final size:19
Alignment explanation
Indices: 10397602--10397640 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10397592 CAACGTCTAG
*
10397602 AGTGTAAATACCGTAACTA
1 AGTGTAAATACCGCAACTA
* *
10397621 AGTGTGAATACTGCAACTA
1 AGTGTAAATACCGCAACTA
10397640 A
1 A
10397641 ATATATGAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (19 bp):
AGTGTAAATACCGCAACTA
Found at i:10398402 original size:5 final size:5
Alignment explanation
Indices: 10398392--10398421 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
10398382 AATTTTTAAC
10398392 AAAGA AAAG- AAAGA AAAGA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA A
10398422 GAATATAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:10398406 original size:9 final size:9
Alignment explanation
Indices: 10398392--10398421 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
10398382 AATTTTTAAC
10398392 AAAGAAAAG
1 AAAGAAAAG
10398401 AAAGAAAAG
1 AAAGAAAAG
10398410 AAAAGAAAAG
1 -AAAGAAAAG
10398420 AA
1 AA
10398422 GAATATAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:10399595 original size:43 final size:43
Alignment explanation
Indices: 10399548--10399631 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
10399538 TATGTGATTG
*
10399548 ATATTGAAATGGAAAAGATGAAAAATGAATATGAGATGAGAAA
1 ATATTGAAATAGAAAAGATGAAAAATGAATATGAGATGAGAAA
* * *
10399591 ATATTGAAATAGAAAATATGATAAATGATTATGAGATGAGA
1 ATATTGAAATAGAAAAGATGAAAAATGAATATGAGATGAGA
10399632 TATGAAATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.25
Consensus pattern (43 bp):
ATATTGAAATAGAAAAGATGAAAAATGAATATGAGATGAGAAA
Found at i:10400989 original size:49 final size:49
Alignment explanation
Indices: 10400927--10401035 Score: 157
Period size: 49 Copynumber: 2.2 Consensus size: 49
10400917 TCTAACATTC
* ** *
10400927 TAGAAA-GGATAAATAATGATAAGATTGTAGACAGTGGAAGACTAAGTT
1 TAGAAATGTATAAATAATGATAAGAGAGTAGACAGTGGAAGACCAAGTT
* *
10400975 TAGCAATGTATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTT
1 TAGAAATGTATAAATAATGATAAGAGAGTAGACAGTGGAAGACCAAGTT
10401024 TAGAAATGTATA
1 TAGAAATGTATA
10401036 GCATAATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 5 0.09
49 48 0.91
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.25
Consensus pattern (49 bp):
TAGAAATGTATAAATAATGATAAGAGAGTAGACAGTGGAAGACCAAGTT
Found at i:10409193 original size:22 final size:22
Alignment explanation
Indices: 10409168--10409214 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
10409158 TTCTTGTTAA
10409168 TTATATCACACTT-T-CTTCCATT
1 TTATAT-ACACTTCTGCTT-CATT
*
10409190 TTATGTACACTTCTGCTTCATT
1 TTATATACACTTCTGCTTCATT
10409212 TTA
1 TTA
10409215 ATTTCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.27
22 13 0.59
23 3 0.14
ACGTcount: A:0.21, C:0.23, G:0.04, T:0.51
Consensus pattern (22 bp):
TTATATACACTTCTGCTTCATT
Found at i:10412749 original size:16 final size:16
Alignment explanation
Indices: 10412724--10412757 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10412714 TAAAAGTATG
* *
10412724 TATATGTATTATATAA
1 TATATATATTATAAAA
10412740 TATATATATTATAAAA
1 TATATATATTATAAAA
10412756 TA
1 TA
10412758 AATGAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TATATATATTATAAAA
Found at i:10415909 original size:30 final size:30
Alignment explanation
Indices: 10415873--10415953 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
10415863 AAATTAATAG
*
10415873 GCACACAACCGTGTGAGTAGGCCATGTGTA
1 GCACACAACTGTGTGAGTAGGCCATGTGTA
* * *
10415903 GCACACAACTGTGTAAGTAGGCCGTGTGTT
1 GCACACAACTGTGTGAGTAGGCCATGTGTA
10415933 GCACACAACTGTGTGAGTAGG
1 GCACACAACTGTGTGAGTAGG
10415954 TTGTGTATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (30 bp):
GCACACAACTGTGTGAGTAGGCCATGTGTA
Found at i:10415965 original size:30 final size:30
Alignment explanation
Indices: 10415873--10415967 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
10415863 AAATTAATAG
*
10415873 GCACACAACCGTGTGAGTAGGCCATGTGTA--
1 GCACACAACTGTGTGAGTAGG--ATGTGTATT
* ** *
10415903 GCACACAACTGTGTAAGTAGGCCGTGTGTT
1 GCACACAACTGTGTGAGTAGGATGTGTATT
*
10415933 GCACACAACTGTGTGAGTAGGTTGTGTATT
1 GCACACAACTGTGTGAGTAGGATGTGTATT
10415963 GCACA
1 GCACA
10415968 TGATCGTGTG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 4 0.07
30 50 0.93
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (30 bp):
GCACACAACTGTGTGAGTAGGATGTGTATT
Found at i:10419731 original size:14 final size:14
Alignment explanation
Indices: 10419679--10419731 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
10419669 TATTATTTTT
*
10419679 AATATAATATAAAG
1 AATATAATATAAAA
* *
10419693 ATTATTATATAAAA
1 AATATAATATAAAA
* *
10419707 AATTTTA-ATAAAA
1 AATATAATATAAAA
10419720 AATATAATATAA
1 AATATAATATAA
10419732 TATAACATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
AATATAATATAAAA
Found at i:10421542 original size:26 final size:27
Alignment explanation
Indices: 10421488--10421543 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
10421478 TAAAAATTTA
*
10421488 TTTCTTAAAAACCAATTATATACCTTAT
1 TTTCTTAAAAAACAATTATATA-CTTAT
*
10421516 TTTCTTAAAAAATAATTATATA-TTAT
1 TTTCTTAAAAAACAATTATATACTTAT
10421542 TT
1 TT
10421544 AAGTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 6 0.23
28 20 0.77
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTCTTAAAAAACAATTATATACTTAT
Found at i:10421783 original size:21 final size:20
Alignment explanation
Indices: 10421748--10421804 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
10421738 TTTAAATTGT
10421748 TTTTTAT-ATAA-ATTTTATA
1 TTTTTATAATAATATTTT-TA
10421767 TTTTTATAATAATATTTGTTA
1 TTTTTATAATAATATTT-TTA
10421788 TTTTT-TAA-AATATTTTT
1 TTTTTATAATAATATTTTT
10421805 GAAGGTATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.06
19 14 0.40
20 7 0.20
21 11 0.31
22 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTATAATAATATTTTTA
Found at i:10425732 original size:11 final size:11
Alignment explanation
Indices: 10425716--10425741 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10425706 CTAGCATGTC
10425716 AATTTTATTAA
1 AATTTTATTAA
10425727 AATTTTATTAA
1 AATTTTATTAA
10425738 AATT
1 AATT
10425742 ATTTGAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTTATTAA
Found at i:10428173 original size:20 final size:20
Alignment explanation
Indices: 10428148--10428190 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10428138 GGGAACAATT
* *
10428148 TTTCAATCGATTTAAAAATG
1 TTTCAATCGAGTTAAAAAAG
*
10428168 TTTCAATTGAGTTAAAAAAG
1 TTTCAATCGAGTTAAAAAAG
10428188 TTT
1 TTT
10428191 AAACCGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (20 bp):
TTTCAATCGAGTTAAAAAAG
Found at i:10428264 original size:16 final size:16
Alignment explanation
Indices: 10428243--10428310 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
10428233 TTTGGTTCGC
10428243 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
10428259 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
10428274 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
10428291 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
10428307 TGTA
1 TGTA
10428311 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:10428282 original size:32 final size:32
Alignment explanation
Indices: 10428243--10428310 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
10428233 TTTGGTTCGC
10428243 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
10428275 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
10428307 TGTA
1 TGTA
10428311 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:10428634 original size:157 final size:157
Alignment explanation
Indices: 10428447--10428749 Score: 525
Period size: 157 Copynumber: 1.9 Consensus size: 157
10428437 CATAATTTTA
*
10428447 TTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAA
1 TTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAA
* *
10428512 TATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAATTCAATA
66 TAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAATTCAATA
10428577 AAATTCTTAATAATTACCAGAAATTTG
131 AAATTCTTAATAATTACCAGAAATTTG
* * *
10428604 TTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAATAATAAA
1 TTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAA
* * *
10428669 TAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAATTTAATA
66 TAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAATTCAATA
10428734 AAATTCTTAATAATTA
131 AAATTCTTAATAATTA
10428750 ATATTCTTAT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 137 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
TTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAA
TAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAATTCAATA
AAATTCTTAATAATTACCAGAAATTTG
Found at i:10429647 original size:13 final size:13
Alignment explanation
Indices: 10429629--10429658 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10429619 CAATCAGCTA
10429629 AATTCAGAAAAAC
1 AATTCAGAAAAAC
10429642 AATTCAGAAAAAC
1 AATTCAGAAAAAC
10429655 AATT
1 AATT
10429659 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:10446653 original size:54 final size:54
Alignment explanation
Indices: 10446569--10446687 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
10446559 TCCTCACTCG
* *
10446569 TGTAACTCACTAAGTTGCCTCACACGCCCGTGTGCCAGGCCATATACTAGGCCA
1 TGTAACTCACTAAGTTGCCACACACGCCCGTGTGCCAAGCCATATACTAGGCCA
* * * * * * **
10446623 TGTAACTCTCTTAGTTGCCACACACTCCCGTGTTCCAAGCCATGTGCTAGGCTG
1 TGTAACTCACTAAGTTGCCACACACGCCCGTGTGCCAAGCCATATACTAGGCCA
10446677 TGTAACTCACT
1 TGTAACTCACT
10446688 GACTTGGAAC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (54 bp):
TGTAACTCACTAAGTTGCCACACACGCCCGTGTGCCAAGCCATATACTAGGCCA
Found at i:10457664 original size:35 final size:35
Alignment explanation
Indices: 10457624--10457691 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
10457614 CATCTCCGGA
* *
10457624 GCTTGGTAAATATGGAAAGTGATCTTTAAAGATGT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATGT
*
10457659 GCTTGGCAAATATGGAATGTGATCTTCAAAGAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGAT
10457692 ATGTGATCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTGATCTTCAAAGATGT
Found at i:10458890 original size:48 final size:48
Alignment explanation
Indices: 10458819--10458915 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
10458809 AATCGAAATG
10458819 ATCACACATTTTCTCATTGATTTGATGAATTAAAGTAGAATAGTTTAT
1 ATCACACATTTTCTCATTGATTTGATGAATTAAAGTAGAATAGTTTAT
10458867 ATCACACATTTTCTCATTGATTTGATGAATTAAAGTAGAATAGTTTAT
1 ATCACACATTTTCTCATTGATTTGATGAATTAAAGTAGAATAGTTTAT
10458915 A
1 A
10458916 CGTATGTGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (48 bp):
ATCACACATTTTCTCATTGATTTGATGAATTAAAGTAGAATAGTTTAT
Found at i:10459728 original size:14 final size:14
Alignment explanation
Indices: 10459709--10459735 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10459699 AAGGAAGAAA
10459709 AAGAGAAATAAATT
1 AAGAGAAATAAATT
10459723 AAGAGAAATAAAT
1 AAGAGAAATAAAT
10459736 AATGTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.19
Consensus pattern (14 bp):
AAGAGAAATAAATT
Found at i:10460256 original size:22 final size:22
Alignment explanation
Indices: 10460215--10460271 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
10460205 TTTTAATTAT
10460215 ATTTATTA-TTAACAAAATTTA
1 ATTTATTATTTAACAAAATTTA
*
10460236 GTTTATTATTTAA-AAATATTTA
1 ATTTATTATTTAACAAA-ATTTA
10460258 ATTTAACTTATTTA
1 ATTT-A-TTATTTA
10460272 TTTTTAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 10 0.33
22 12 0.40
23 1 0.03
24 7 0.23
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTTATTATTTAACAAAATTTA
Found at i:10462078 original size:12 final size:12
Alignment explanation
Indices: 10462061--10462091 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10462051 GAAGCAGGGG
10462061 AGAAAAAGCGAA
1 AGAAAAAGCGAA
*
10462073 AGAAAAAGGGAA
1 AGAAAAAGCGAA
10462085 AGAAAAA
1 AGAAAAA
10462092 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGCGAA
Found at i:10472359 original size:3 final size:3
Alignment explanation
Indices: 10472351--10472375 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10472341 GTTGTGGCGT
10472351 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
10472376 AAATTAGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Done.