Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 142 of 216
Found at i:44959273 original size:18 final size:18
Alignment explanation
Indices: 44959251--44959291 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
44959241 ATTAAAAGTA
*
44959251 AAAAATATAAAAAAGTTAT
1 AAAATTATAAAAAA-TTAT
*
44959270 AAAATTATTAAAAATTAT
1 AAAATTATAAAAAATTAT
44959288 AAAA
1 AAAA
44959292 ACTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATTATAAAAAATTAT
Found at i:44959291 original size:28 final size:26
Alignment explanation
Indices: 44959251--44959329 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 26
44959241 ATTAAAAGTA
44959251 AAAAATATAAAAAAGTTATAAAATTATT
1 AAAAATAT-AAAAAGTTATAAAATT-TT
*
44959279 AAAAATTATAAAAACTTAT-AAATTTT
1 AAAAA-TATAAAAAGTTATAAAATTTT
44959305 AAAAATATTAAAAATGCTTATAAAA
1 AAAAATA-TAAAAA-G-TTATAAAA
44959330 AATTCTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 2 0.05
26 13 0.30
27 5 0.11
28 18 0.41
29 6 0.14
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAAATATAAAAAGTTATAAAATTTT
Found at i:44959318 original size:9 final size:9
Alignment explanation
Indices: 44959232--44959360 Score: 54
Period size: 9 Copynumber: 14.0 Consensus size: 9
44959222 CAAAATAATT
44959232 TTAAAAATTA
1 TTAAAAA-TA
*
44959242 TTAAAAGTA
1 TTAAAAATA
44959251 --AAAAATA
1 TTAAAAATA
44959258 -TAAAAA-A
1 TTAAAAATA
44959265 GTTATAAAATTA
1 -TTA-AAAA-TA
44959277 TTAAAAAT-
1 TTAAAAATA
*
44959285 TATAAAAA-C
1 T-TAAAAATA
* *
44959294 TTATAAATT
1 TTAAAAATA
44959303 TTAAAAATA
1 TTAAAAATA
*
44959312 TTAAAAATGC
1 TTAAAAAT-A
*
44959322 TTATAAAAAA
1 TTA-AAAATA
**
44959332 TTCTAAATAA
1 TTAAAAAT-A
44959342 TTATAAAATA
1 TTA-AAAATA
*
44959352 ATAAAAATA
1 TTAAAAATA
44959361 AAACATATAT
Statistics
Matches: 91, Mismatches: 15, Indels: 27
0.68 0.11 0.20
Matches are distributed among these distances:
7 7 0.08
8 11 0.12
9 36 0.40
10 25 0.27
11 11 0.12
12 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:44959319 original size:18 final size:18
Alignment explanation
Indices: 44959228--44959319 Score: 73
Period size: 17 Copynumber: 5.2 Consensus size: 18
44959218 ATTACAAAAT
44959228 AATTTTAAAAATTATT-AA
1 AATTTTAAAAA-TATTAAA
* * *
44959246 AA-GTAAAAAATATAAAA
1 AATTTTAAAAATATTAAA
* *
44959263 AAGTTATAAAATTATTAAA
1 AA-TTTTAAAAATATTAAA
* * *
44959282 AATTATAAAAA-CTTATA
1 AATTTTAAAAATATTAAA
44959299 AATTTTAAAAATATTAAA
1 AATTTTAAAAATATTAAA
44959317 AAT
1 AAT
44959320 GCTTATAAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
16 3 0.05
17 24 0.43
18 17 0.30
19 12 0.21
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTTTAAAAATATTAAA
Found at i:44960032 original size:24 final size:24
Alignment explanation
Indices: 44960005--44960064 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
44959995 TAAATGATTT
* *
44960005 TTTTATAATTTCTAATTTTTTTAG-
1 TTTTATAATTTATAA-TTTATTAGA
44960029 TTTTATAATATTATAATTTATTAGA
1 TTTTATAAT-TTATAATTTATTAGA
*
44960054 TTTTAAAATTT
1 TTTTATAATTT
44960065 TTTATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTATAATTTATAATTTATTAGA
Found at i:44960485 original size:17 final size:17
Alignment explanation
Indices: 44960463--44960497 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44960453 TCTTTGGTTG
44960463 ATTGACCTTATCAAATC
1 ATTGACCTTATCAAATC
44960480 ATTGACCTTATCAAATC
1 ATTGACCTTATCAAATC
44960497 A
1 A
44960498 ATAATAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (17 bp):
ATTGACCTTATCAAATC
Found at i:44967038 original size:22 final size:22
Alignment explanation
Indices: 44967013--44967056 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
44967003 AAAATATAAT
*
44967013 AGATATTAGTTGAATAGTTATG
1 AGATATTAGTTGAATAATTATG
44967035 AGATATTAGTTGAATAATTATG
1 AGATATTAGTTGAATAATTATG
44967057 TCTCTCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (22 bp):
AGATATTAGTTGAATAATTATG
Found at i:44969184 original size:27 final size:27
Alignment explanation
Indices: 44969134--44969190 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
44969124 AACTTGTTTT
*
44969134 AATTTTTTAAAAAAAATTATTATATAA
1 AATTTTTTAAAAAAAATTAATATATAA
* *
44969161 AATTATTTTAAAAAATA-TAATATATCA
1 AATT-TTTTAAAAAAAATTAATATATAA
44969188 AAT
1 AAT
44969191 ACACTAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AATTTTTTAAAAAAAATTAATATATAA
Found at i:44970818 original size:21 final size:22
Alignment explanation
Indices: 44970767--44970820 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
44970757 TTCGTGTATC
44970767 ATTTTAAGTTTTCATATATTATT
1 ATTTTAA-TTTTCATATATTATT
*
44970790 A-TTAAATTTT-A-ATACTTATT
1 ATTTTAATTTTCATATA-TTATT
44970810 ATTTTAATTTT
1 ATTTTAATTTT
44970821 GTGATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 7 0.26
21 12 0.44
22 4 0.15
23 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTAATTTTCATATATTATT
Found at i:44971167 original size:18 final size:17
Alignment explanation
Indices: 44971123--44971169 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
44971113 TTTTGCTAAC
44971123 ATTATTATATATATATAT
1 ATTATTAT-TATATATAT
*
44971141 ATCTA-TATTATCATTTAT
1 AT-TATTATTAT-ATATAT
44971159 ATTATTATTAT
1 ATTATTATTAT
44971170 GTTTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 18 0.72
19 2 0.08
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTATTATTATATATAT
Found at i:44974518 original size:9 final size:9
Alignment explanation
Indices: 44974506--44974530 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44974496 GGAAAACAAG
44974506 GTGAGCAAT
1 GTGAGCAAT
44974515 GTGAGCAAT
1 GTGAGCAAT
44974524 GTGAGCA
1 GTGAGCA
44974531 CATACAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (9 bp):
GTGAGCAAT
Found at i:44978295 original size:44 final size:44
Alignment explanation
Indices: 44978247--44978472 Score: 124
Period size: 44 Copynumber: 5.1 Consensus size: 44
44978237 GACACAAGCC
*
44978247 TTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGGTAGCAGATA
1 TTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATA
* * * * * * * *
44978291 TTGCCTTCCT-GCATCGACAGTGAAGCAGATTGAAGACA-CAAGA-C
1 TTGCCTCCCTCG-GTTG-TAGTGGAGCAGGTTGAAGATAGC-AGATA
* *
44978335 TTGCCTCCCTCGGTTGTAGTGGAGTAGGTTGAAGATAGCAGATC
1 TTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATA
* * ** ** * * * **
44978379 TTGTCTTCCT-GCATCAACG-GCGAAGCAGATCGAAGACA-CA-AGCC
1 TTGCCTCCCTCGGTTGTA-GTG-G-AGCAGGTTGAAGATAGCAGA-TA
* *
44978423 TTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGTC
1 TTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATA
44978467 TTGCCT
1 TTGCCT
44978473 TCTTGCATCG
Statistics
Matches: 129, Mismatches: 39, Indels: 28
0.66 0.20 0.14
Matches are distributed among these distances:
43 37 0.29
44 57 0.44
45 35 0.27
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (44 bp):
TTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATA
Found at i:44978338 original size:88 final size:88
Alignment explanation
Indices: 44978188--44978853 Score: 1021
Period size: 88 Copynumber: 7.6 Consensus size: 88
44978178 AACAGATCAG
*
44978188 TGAAGATAGCAGATCTTGCCTTCCTGTA-CTGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
*
44978252 TCCCTCGGTTGTAGTGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGTAGGT
* * * *
44978276 TGAAGGTAGCAGATATTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGACTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
44978341 CCCTCGGTTGTAGTGGAGTAGGT
66 CCCTCGGTTGTAGTGGAGTAGGT
* * * *
44978364 TGAAGATAGCAGATCTTGTCTTCCTGCATCAACGGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
44978429 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGTAGGT
* * * *
44978452 TGAAGATAGCAGGTCTTGCCTTCTTGCATCGACAGTGAAGTAGAACGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
44978517 CCCTCTGTTGTAGTGGAGTAGGT
66 CCCTCGGTTGTAGTGGAGTAGGT
* * * *
44978540 TGAAAATAGCAGGTCTTGTCTTCCTACATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
44978605 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGTAGGT
* * * *
44978628 TAAAGATAGCAGATCTTGCCTT-CTGGTATCGACAGTGAAGTAGATTGAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCT-GCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
*
44978692 TCTCTCGGTTGTAGTGGAGTAGGT
65 TCCCTCGGTTGTAGTGGAGTAGGT
* * * *
44978716 TGAAGATAGCAGATCTAGCCTTCCTGCATCGACGGTGAAGTAGACCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
44978781 CCCTCGGTTGTAGTGGAGTAGGT
66 CCCTCGGTTGTAGTGGAGTAGGT
*
44978804 TGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
44978854 CCAATGGTCC
Statistics
Matches: 520, Mismatches: 55, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
87 2 0.00
88 515 0.99
89 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGTAGGT
Found at i:44978690 original size:44 final size:44
Alignment explanation
Indices: 44978642--44978780 Score: 108
Period size: 44 Copynumber: 3.2 Consensus size: 44
44978632 GATAGCAGAT
44978642 CTTGCCTTCTGGTATCGACAGTGAAGTAGATTGAAGACACAAGC
1 CTTGCCTTCTGGTATCGACAGTGAAGTAGATTGAAGACACAAGC
* * * * *
44978686 CTTGCCTCTCTCGGT-T-G-TAGTGGAGTAGGTTGAAGATAGC-AGAT
1 CTTGCCT-TCT-GGTATCGACAGTGAAGTAGATTGAAGACA-CAAG-C
* * * **
44978730 CTAGCCTTCCT-GCATCGACGGTGAAGTAGACCGAAGACACAAGC
1 CTTGCCTT-CTGGTATCGACAGTGAAGTAGATTGAAGACACAAGC
44978774 CTTGCCT
1 CTTGCCT
44978781 CCCTCGGTTG
Statistics
Matches: 70, Mismatches: 16, Indels: 18
0.67 0.15 0.17
Matches are distributed among these distances:
42 1 0.01
43 21 0.30
44 25 0.36
45 20 0.29
46 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCTGGTATCGACAGTGAAGTAGATTGAAGACACAAGC
Found at i:44980860 original size:24 final size:24
Alignment explanation
Indices: 44980833--44980884 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44980823 TTAGTAAGTC
*
44980833 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44980857 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44980881 AAAT
1 AAAT
44980885 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44983095 original size:34 final size:35
Alignment explanation
Indices: 44983055--44983127 Score: 114
Period size: 34 Copynumber: 2.1 Consensus size: 35
44983045 AAAGAAAATG
44983055 CAAACATATATCTTACTTTTT-TATA-AATAATAAA
1 CAAACATATATCTTACTTTTTATATATAA-AATAAA
*
44983089 CAAACATATATCTTACTTTTTATATATAAAATAAT
1 CAAACATATATCTTACTTTTTATATATAAAATAAA
44983124 CAAA
1 CAAA
44983128 TATAGGTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 21 0.58
35 13 0.36
36 2 0.06
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (35 bp):
CAAACATATATCTTACTTTTTATATATAAAATAAA
Found at i:44983138 original size:35 final size:34
Alignment explanation
Indices: 44983055--44983138 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
44983045 AAAGAAAATG
*
44983055 CAAACATATATCTTACTTTTTTATAAATAATAAA
1 CAAACATAGATCTTACTTTTTTATAAATAATAAA
* *
44983089 CAAACATATATCTTACTTTTTATATATAA-AATAAT
1 CAAACATAGATCTTACTTTTT-TATA-AATAATAAA
* *
44983124 CAAATATAGGTCTTA
1 CAAACATAGATCTTA
44983139 ATAATTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 21 0.48
35 21 0.48
36 2 0.05
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (34 bp):
CAAACATAGATCTTACTTTTTTATAAATAATAAA
Found at i:44984100 original size:19 final size:19
Alignment explanation
Indices: 44984076--44984113 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
44984066 ACTACTGTCA
*
44984076 CCCACCATAATCAAATTTG
1 CCCACCATAATAAAATTTG
44984095 CCCACCATAATAAAATTTG
1 CCCACCATAATAAAATTTG
44984114 TTATTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.29, G:0.05, T:0.26
Consensus pattern (19 bp):
CCCACCATAATAAAATTTG
Found at i:44986334 original size:33 final size:33
Alignment explanation
Indices: 44986196--44986339 Score: 87
Period size: 33 Copynumber: 4.3 Consensus size: 33
44986186 ATAACCCAGT
* * * *
44986196 TATGTTCTTATCATTAGAATGCCATAGCCCAGC
1 TATGGTCTTATCATCAGAATGCCATAGTCCAAC
* * *
44986229 TATGGTCTTAT-AT-ATAAATACTATCATGGTCCAAC
1 TATGGTCTTATCATCA-GAATGC---CATAGTCCAAC
* ** * * * **
44986264 CATGGTCTTATGTTCATAGTGCCATA-ACTCAGT
1 TATGGTCTTATCATCAGAATGCCATAGTC-CAAC
44986297 TATGGTCTTATCATCAGAATGCCATAGTCCAAC
1 TATGGTCTTATCATCAGAATGCCATAGTCCAAC
44986330 TATGGTCTTA
1 TATGGTCTTA
44986340 CAAATAAGCA
Statistics
Matches: 80, Mismatches: 23, Indels: 16
0.67 0.19 0.13
Matches are distributed among these distances:
31 1 0.01
32 7 0.09
33 48 0.60
34 1 0.01
35 18 0.22
36 4 0.05
37 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (33 bp):
TATGGTCTTATCATCAGAATGCCATAGTCCAAC
Found at i:44986358 original size:101 final size:101
Alignment explanation
Indices: 44986170--44986409 Score: 327
Period size: 101 Copynumber: 2.4 Consensus size: 101
44986160 AATTCATCAT
* * * * *
44986170 TTACATTCGTAGTGCCATAACCCAGTTATGTTCTTATCATTAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
* * * * *
44986235 CTTATATATAAATACTATCATGGTCCAACCATGGTC
66 CTTACAAATAAACACTACCATGGTCCAACCATGGTA
* * *
44986271 TTATGTTCATAGTGCCATAACTCAGTTATGGTCTTATCATCAGAATGCCATAGTCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
* *
44986336 CTTACAAATAAGCACTGCCATGGTCCAACCATGGTA
66 CTTACAAATAAACACTACCATGGTCCAACCATGGTA
* *
44986372 TTACGTTCATAGTACCATAACCCAATTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
44986410 CGTCAATTCA
Statistics
Matches: 120, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 120 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
CTTACAAATAAACACTACCATGGTCCAACCATGGTA
Found at i:44988327 original size:11 final size:11
Alignment explanation
Indices: 44988311--44988360 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
44988301 TACTAAATAA
44988311 AATAATAAAAT
1 AATAATAAAAT
44988322 AATAATAAAAT
1 AATAATAAAAT
* *
44988333 ATCTCATTAAAAT
1 A-AT-AATAAAAT
*
44988346 ATTAATAAAAT
1 AATAATAAAAT
44988357 AATA
1 AATA
44988361 TTTATCTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 22 0.69
12 2 0.06
13 8 0.25
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:44988651 original size:30 final size:31
Alignment explanation
Indices: 44988599--44988657 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
44988589 CACCCTAAAA
*
44988599 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGTCCTTCAAATTTTTC
44988630 ATATTTACACT-TTA-TCCCTTCAAATTTT
1 ATATTTACACTATTAGT-CCTTCAAATTTT
44988658 GAGTATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 15 0.58
31 10 0.38
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAGTCCTTCAAATTTTTC
Found at i:44991230 original size:5 final size:5
Alignment explanation
Indices: 44991210--44991251 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
44991200 CTTTGGAAAT
44991210 TATGA TAT-A T-TGA TATGA TATGA TATGA TATGTAA TATGA TA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATG--A TATGA TA
44991252 GGGAGTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 1 0.03
4 4 0.12
5 23 0.70
7 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (5 bp):
TATGA
Found at i:44997111 original size:14 final size:15
Alignment explanation
Indices: 44997092--44997120 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44997082 GGAAGGGAAA
44997092 TGAAGAGA-GAGAAG
1 TGAAGAGATGAGAAG
44997106 TGAAGAGATGAGAAG
1 TGAAGAGATGAGAAG
44997121 AGTTGAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.41, T:0.10
Consensus pattern (15 bp):
TGAAGAGATGAGAAG
Found at i:44997679 original size:10 final size:10
Alignment explanation
Indices: 44997664--44997706 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
44997654 CTGTCGAAAG
44997664 TAATCAAAAT
1 TAATCAAAAT
44997674 TAATCAAAAT
1 TAATCAAAAT
*
44997684 TAATTATAAAAT
1 TAA-T-CAAAAT
*
44997696 TAATTAAAAT
1 TAATCAAAAT
44997706 T
1 T
44997707 CAGCATGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 20 0.67
11 2 0.07
12 8 0.27
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
TAATCAAAAT
Found at i:45000580 original size:25 final size:25
Alignment explanation
Indices: 45000551--45000610 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
45000541 TTAATTAGTA
*
45000551 TAAAATATTAATAATTTAAT-AAAT
1 TAAAATATTAATAATTAAATAAAAT
45000575 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATT-AATAATTAAATAAAAT
45000601 TAAAAT-TTAA
1 TAAAATATTAA
45000611 GAGAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 6 0.19
25 20 0.65
26 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAAATATTAATAATTAAATAAAAT
Found at i:45008209 original size:50 final size:50
Alignment explanation
Indices: 45008062--45008332 Score: 262
Period size: 50 Copynumber: 5.3 Consensus size: 50
45008052 CGATCTCATA
* * ** * *
45008062 TAAGACCATGTCTGGGACATGGCGTCGACATTGATATGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA-TG
* *
45008110 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAGGTCCCATG
* * *
45008166 TAAGACCATGTCTGGGACATGGGGTTCGCACCGAGATGAGAGGTGCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
* * *
45008216 TAAGACCATGTCTGGGACATGACGTTGGCACCGGGATGAGAGGTCCTC-CG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC-CATG
* * * **
45008266 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
*
45008316 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
45008333 TATGACATTC
Statistics
Matches: 186, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
48 27 0.15
49 1 0.01
50 112 0.60
51 4 0.02
53 3 0.02
54 5 0.03
55 2 0.01
56 29 0.16
57 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
Found at i:45009912 original size:23 final size:23
Alignment explanation
Indices: 45009874--45009924 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
45009864 GGGGGAGAAA
*
45009874 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
45009897 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
45009920 AGTAA
1 TGTAA
45009925 GAAAGTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:45013814 original size:225 final size:225
Alignment explanation
Indices: 45013423--45013854 Score: 801
Period size: 225 Copynumber: 1.9 Consensus size: 225
45013413 GGTACAGTTA
* *
45013423 GTAGATTTGATTGAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAAGACTGAAAG
1 GTAGATTTGATTAAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAAGACTAAAAG
*
45013488 TGTCAGATTAACCGGGAAACGTGTAGGAACTACCAGCTCAAATCTACAGCCAAAAAGATCAAAGG
66 TGTCAGATTAACCGGGAAACGTGTAGGAACTACCAGCTCAAATCTACAACCAAAAAGATCAAAGG
*
45013553 ACTCTCAAGGTGATTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAG
131 AATCTCAAGGTGATTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAG
45013618 ACGACAGTATCTCACCGGATTACTAAATTC
196 ACGACAGTATCTCACCGGATTACTAAATTC
45013648 GTAGATTTGATTAAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAAGACTAAAAG
1 GTAGATTTGATTAAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAAGACTAAAAG
*
45013713 TGTCAGATTAACCGGGAAACGTGTGGGAACTACCAGCTCAAATCTACAACCAAAAAGATCAAAGG
66 TGTCAGATTAACCGGGAAACGTGTAGGAACTACCAGCTCAAATCTACAACCAAAAAGATCAAAGG
*
45013778 AATCTCAAGGTGGTTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAG
131 AATCTCAAGGTGATTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAG
*
45013843 ACGACGGTATCT
196 ACGACAGTATCT
45013855 ACTGGCAGTG
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
225 200 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (225 bp):
GTAGATTTGATTAAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAAGACTAAAAG
TGTCAGATTAACCGGGAAACGTGTAGGAACTACCAGCTCAAATCTACAACCAAAAAGATCAAAGG
AATCTCAAGGTGATTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAG
ACGACAGTATCTCACCGGATTACTAAATTC
Found at i:45016309 original size:26 final size:26
Alignment explanation
Indices: 45016273--45016341 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
45016263 TTTTTTATAT
* *
45016273 ATATTATTTATTTTAAGATGTTTTAC
1 ATATTATTTATTTAAAGATCTTTTAC
** *
45016299 ATATTATTTATTTAAATTTCTTTTAT
1 ATATTATTTATTTAAAGATCTTTTAC
45016325 ATATTATTTATTGTAAA
1 ATATTATTTATT-TAAA
45016342 CTATTATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 33 0.89
27 4 0.11
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.59
Consensus pattern (26 bp):
ATATTATTTATTTAAAGATCTTTTAC
Found at i:45016351 original size:26 final size:24
Alignment explanation
Indices: 45016267--45016352 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 24
45016257 TTTAATTTTT
*
45016267 TTATATATATTATTTATTTTAAGATG
1 TTATATATATTATTTA-TTTAA-ATA
* * *
45016293 TTTTACATATTATTTATTTAAATTTC
1 TTATATATATTATTTATTTAAA--TA
*
45016319 TTTTATATATTATTTATTGTAAACTA
1 TTATATATATTATTTATT-TAAA-TA
45016345 TTATATAT
1 TTATATAT
45016353 TCTTTCAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 1 0.02
25 5 0.10
26 40 0.80
27 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (24 bp):
TTATATATATTATTTATTTAAATA
Found at i:45016392 original size:24 final size:25
Alignment explanation
Indices: 45016346--45016397 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
45016336 TGTAAACTAT
45016346 TATATATTCTTTCAAAAATTTTT-A
1 TATATATTCTTTCAAAAATTTTTGA
* *
45016370 TATATATT-TTTTAAAACTGTTTTGA
1 TATATATTCTTTCAAAAAT-TTTTGA
45016395 TAT
1 TAT
45016398 GTGTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 12 0.50
25 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATTCTTTCAAAAATTTTTGA
Found at i:45016427 original size:25 final size:25
Alignment explanation
Indices: 45016399--45016459 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
45016389 TTTTGATATG
45016399 TGTTTTTATATTATTTATTTTAAAT
1 TGTTTTTATATTATTTATTTTAAAT
* * *
45016424 TG-TTTTATTGTTATTTATTTTTAGT
1 TGTTTTTA-TATTATTTATTTTAAAT
45016449 T-TTTTTATATT
1 TGTTTTTATATT
45016460 TTGTTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (25 bp):
TGTTTTTATATTATTTATTTTAAAT
Found at i:45016885 original size:15 final size:15
Alignment explanation
Indices: 45016865--45016893 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45016855 GAACATCCTT
45016865 CTAAATTTAAAATAC
1 CTAAATTTAAAATAC
45016880 CTAAATTTAAAATA
1 CTAAATTTAAAATA
45016894 AAAATCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
CTAAATTTAAAATAC
Found at i:45017499 original size:19 final size:18
Alignment explanation
Indices: 45017458--45017501 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
45017448 TTCGTTGCAT
45017458 TTCATTTTTATAGTTTGC
1 TTCATTTTTATAGTTTGC
*
45017476 GTCATTTTGCTATA-TTTGC
1 TTCATTTT--TATAGTTTGC
45017495 TTCATTT
1 TTCATTT
45017502 GTTCAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.16, C:0.14, G:0.11, T:0.59
Consensus pattern (18 bp):
TTCATTTTTATAGTTTGC
Found at i:45019767 original size:19 final size:18
Alignment explanation
Indices: 45019733--45019769 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
45019723 AAAAAAAGAT
*
45019733 GAAATGAAAAAAAGAAAA
1 GAAAAGAAAAAAAGAAAA
45019751 GAAAAGAAAAGAAAGAAAA
1 GAAAAGAAAA-AAAGAAAA
45019770 TTAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
GAAAAGAAAAAAAGAAAA
Found at i:45020691 original size:50 final size:48
Alignment explanation
Indices: 45020616--45020783 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 48
45020606 GATCCCATAC
*
45020616 CCCTGAAGTTGTAGTGG-G-ATGGATTGAAGACATCATGAGGAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCA--GATTGAAG-CATCATGA-GAATCTTATCT
* * *
45020666 CCCTGAAGTTGTAGTGGAGCAGATTGAATC--CACT-AG--TCTTGTCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCATCA-TGAGAATCTTATCT
* **
45020710 CCCTGAAGTTGCAGTGGAGCAGACTGAAG-AT-A-GCCAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCATCATGAGAATCTTATCT
* *
45020755 CCCTGAAGTTACAGTGGAGTAGATTGAAG
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAG
45020784 GTACTAATCC
Statistics
Matches: 99, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
44 34 0.34
45 33 0.33
46 1 0.01
47 3 0.03
48 1 0.01
49 1 0.01
50 24 0.24
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
CCCTGAAGTTGCAGTGGAGCAGATTGAAGCATCATGAGAATCTTATCT
Found at i:45020726 original size:44 final size:45
Alignment explanation
Indices: 45020656--45021641 Score: 171
Period size: 44 Copynumber: 21.4 Consensus size: 45
45020646 CATCATGAGG
* ** *
45020656 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAATCCA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
* * * *
45020700 AGTCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
* * ** *
45020745 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGGTA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
* * * ** *
45020789 AATCCTATCTTCCTGAAGTTGCAGTAGAGTGGATT-AAAACGATG--
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC-A-GCC
* * * * *
45020833 AACCTTATAC-CTCTGAAGTTGCAGTAGGTCAGATCAAATCT-ATTGA-AGTTAC
1 AATCTTAT-CTCCCTGAAGTTGCAGT-GG--AG--CAGAT-TGA-AGACAG--CC
* * * * * * *
45020885 AAGTCTTATCTCCCTAAAGTTACAGTGGAGTAGACTAAAGATAGCG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
* * * ** * * **
45020931 GATCTTATTTCTCTGAAGTTTTAGTGGAACAAATTGAAGCTACAAATAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AC--A-GCC
* * * * *
45020981 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCATA-TCA---
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGACAGCC
* * ** * * * * *
45021023 AACCTTATCTCCCTGAAGTTGTAGTGGAATAGGTTAAAAATAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-CAGCC
* **
45021069 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGGGCTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-CAGC--C
* * * ** * * *
45021117 AAATCTAATCTCCTTAAAGTTATAGTGGAGCAGATTAAAGTCA-CA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
* * * *
45021162 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGCAGATTCAAACAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA--C-AGC--C
* * * * * * *
45021212 GAATCCTATAC-CTCTGAGGTTGCAGTAGG-TCGGATTAAATCTACCATAG-C
1 -AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAA--GA-C--AGCC
* * *
45021262 AAGTTTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AA-A-A-CC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
** * * * * *** *
45021304 ACAAATTATCCCCCTGAAGTTGTAGTGGGGTAGGCCGAA-ATCA-CG
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-CAGCC
* * * * * *
45021349 AGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
* * * * ** * *
45021394 AATATTATTTCCTTGAAATTGCAGTGGAATAGATT-AAGGCTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC-AGCC
* * * **
45021438 AATTAGAATTGGATCTCCCTAAAGTTGCACT-GAGGCAGATTGAA-A-ATAC
1 AA-T---CTT--ATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAGACAGCC
* * * * *
45021487 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATAGCA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
* * * * * *
45021533 AATCTTATCTCCCTGAAATTGCAGTAGAACATATTAAAG-CTA--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC-AGCC
* * * *
45021576 AACCTTTATCTCCCTTAAGTTGCAGTGGAGCAGATTGAAGATAGCG
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
*
45021622 AATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTT
45021642 ATAGAAGAGC
Statistics
Matches: 664, Mismatches: 202, Indels: 151
0.65 0.20 0.15
Matches are distributed among these distances:
41 27 0.04
42 32 0.05
43 10 0.02
44 204 0.31
45 147 0.22
46 46 0.07
47 8 0.01
48 13 0.02
49 50 0.08
50 46 0.07
51 53 0.08
52 9 0.01
53 19 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCC
Found at i:45021535 original size:95 final size:95
Alignment explanation
Indices: 45021355--45021535 Score: 204
Period size: 94 Copynumber: 1.9 Consensus size: 95
45021345 CACGAGTCTT
* * * *
45021355 ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATATTATTTCCTTGAAATTGCAGTG
1 ATCTCCCTAAAGTTGCACTAGAGCAGACTGAAAATAGCAAATATTATCTCCCTGAAATTGCAGTG
* * * *
45021420 GAATAGATTAAGGCTACAAATTAGAATTGG
66 GAACAGACTAAAGATACAAATTAGAATTGG
* * * * *
45021450 ATCTCCCTAAAGTTGCACT-GAGGCAGATTGAAAATA-CAAGTCTTATCTCCCTGAAGTTGTAGT
1 ATCTCCCTAAAGTTGCACTAGA-GCAGACTGAAAATAGCAAATATTATCTCCCTGAAATTGCAGT
*
45021513 GGAGCAGACTAAAGATAGCAAAT
65 GGAACAGACTAAAGATA-CAAAT
45021536 CTTATCTCCC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
94 35 0.50
95 35 0.50
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (95 bp):
ATCTCCCTAAAGTTGCACTAGAGCAGACTGAAAATAGCAAATATTATCTCCCTGAAATTGCAGTG
GAACAGACTAAAGATACAAATTAGAATTGG
Found at i:45023093 original size:26 final size:26
Alignment explanation
Indices: 45023063--45023289 Score: 114
Period size: 26 Copynumber: 8.7 Consensus size: 26
45023053 TTTTACCATA
*
45023063 ATTTATTTTAAGTTTTTATATATATT
1 ATTTATTTTAAATTTTTATATATATT
* *
45023089 ATTTATTTTAAGTTGTTT-TACATATT
1 ATTTATTTTAAATT-TTTATATATATT
*
45023115 ATTTA-TTTAAATTTCTTTTATATATT
1 ATTTATTTTAAATTT-TTATATATATT
* *
45023141 ATTTATTGTAAA---CTAT-TATA-T
1 ATTTATTTTAAATTTTTATATATATT
* * * *
45023162 ATATCTTTCAAATTTATATATATATT
1 ATTTATTTTAAATTTTTATATATATT
* *
45023188 -TTAAAACTATTTTGATATGTTTT-TTTATATT
1 ATT-----TATTTT-AAAT-TTTTATATATATT
* *
45023219 ATTTATTTTAAATTTTTTTAT-TGTT
1 ATTTATTTTAAATTTTTATATATATT
* * * *
45023244 ATTTATTTTTAGTTTTTTTATATTTT
1 ATTTATTTTAAATTTTTATATATATT
* *
45023270 GTTTATTTGAAACTTTTTAT
1 ATTTATTTTAAA-TTTTTAT
45023290 TACTTATTTT
Statistics
Matches: 153, Mismatches: 28, Indels: 39
0.70 0.13 0.18
Matches are distributed among these distances:
21 9 0.06
22 4 0.03
23 2 0.01
24 4 0.03
25 40 0.26
26 55 0.36
27 20 0.13
30 4 0.03
31 10 0.07
32 5 0.03
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTTATTTTAAATTTTTATATATATT
Found at i:45023245 original size:25 final size:25
Alignment explanation
Indices: 45023207--45023298 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
45023197 TTTTGATATG
45023207 TTTTTTTA-TATTATTTATTTTAAA
1 TTTTTTTATTATTATTTATTTTAAA
* * *
45023231 TTTTTTTATTGTTATTTATTTTTAG
1 TTTTTTTATTATTATTTATTTTAAA
* * *
45023256 TTTTTTTATATTTTGTTTATTTGAAA
1 TTTTTTTAT-TATTATTTATTTTAAA
*
45023282 -CTTTTTATTACTTATTT
1 TTTTTTTATTA-TTATTT
45023299 TGAATCATTC
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
24 9 0.17
25 34 0.63
26 11 0.20
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTTTTTATTATTATTTATTTTAAA
Found at i:45025595 original size:23 final size:23
Alignment explanation
Indices: 45025569--45025616 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
45025559 ATATAATTGA
45025569 GTATGTTGGTAAATGTTTGACAT
1 GTATGTTGGTAAATGTTTGACAT
45025592 GTATGTTGGTAAATGTTTGACAT
1 GTATGTTGGTAAATGTTTGACAT
45025615 GT
1 GT
45025617 CAGCGAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.04, G:0.27, T:0.44
Consensus pattern (23 bp):
GTATGTTGGTAAATGTTTGACAT
Found at i:45035719 original size:14 final size:15
Alignment explanation
Indices: 45035700--45035728 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45035690 GGAAGGGAAA
45035700 TGAAGAGA-GAGAAG
1 TGAAGAGATGAGAAG
45035714 TGAAGAGATGAGAAG
1 TGAAGAGATGAGAAG
45035729 AGTTGGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.41, T:0.10
Consensus pattern (15 bp):
TGAAGAGATGAGAAG
Found at i:45038809 original size:20 final size:20
Alignment explanation
Indices: 45038784--45038825 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
45038774 ATCAAACAAA
*
45038784 AAAAATCACAAGATTTCAAC
1 AAAAATAACAAGATTTCAAC
45038804 AAAAATAACAAGATTTCAAC
1 AAAAATAACAAGATTTCAAC
45038824 AA
1 AA
45038826 TGGAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.17, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAAATAACAAGATTTCAAC
Found at i:45055750 original size:25 final size:24
Alignment explanation
Indices: 45055713--45055761 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
45055703 CAATAACAAT
45055713 GTATTCTACAAGTGCCTTTTGTGGC
1 GTATTCTACAAGTGCC-TTTGTGGC
**
45055738 GTATTCTGTAAGTGCCTTTGTGGC
1 GTATTCTACAAGTGCCTTTGTGGC
45055762 ATTTTTGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (24 bp):
GTATTCTACAAGTGCCTTTGTGGC
Found at i:45057133 original size:24 final size:24
Alignment explanation
Indices: 45057106--45057155 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
45057096 CAAGACTTAC
45057106 TAAGGGGTCACATACTAAATCACA
1 TAAGGGGTCACATACTAAATCACA
* * *
45057130 TAAGGGTTCGCATATTAAATCACA
1 TAAGGGGTCACATACTAAATCACA
45057154 TA
1 TA
45057156 CTCAATTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (24 bp):
TAAGGGGTCACATACTAAATCACA
Found at i:45057174 original size:36 final size:36
Alignment explanation
Indices: 45057113--45057425 Score: 365
Period size: 36 Copynumber: 8.7 Consensus size: 36
45057103 TACTAAGGGG
* * *
45057113 TCACATACTAAATCACATAAGGGTTCGCATATTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * * *
45057149 TCACATACTCAATTACATGATGGTTCACATGCTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * * *
45057185 TTATATACTAAATTACATGAAGGTTTGCATACTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * * *
45057221 ACACATACTGAATTACATAAAGGTTCGCATACTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * *
45057257 TCACATATTAAATTACATGAGGGTTGGTATACTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * * *
45057293 TAATATACTAAATTACATGAGGGTTTGCATACTAAG
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* *
45057329 TCATATACTAAATTACATGAGGGTTTGCATACTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * *
45057365 TCACATACGAAATTACATGAAGGTTCGCATCCTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* *
45057401 TCATATACTAAATTACTTGAGGGTT
1 TCACATACTAAATTACATGAGGGTT
45057426 TAACATAGTG
Statistics
Matches: 233, Mismatches: 44, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 233 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (36 bp):
TCACATACTAAATTACATGAGGGTTCGCATACTAAA
Found at i:45057257 original size:108 final size:108
Alignment explanation
Indices: 45057114--45057426 Score: 419
Period size: 108 Copynumber: 2.9 Consensus size: 108
45057104 ACTAAGGGGT
* * * * *
45057114 CACATACTAAATCACATAAGGGTTCGCATATTAAATCACATACTCAATTACATGATGGTTCACAT
1 CACATACTAAATTACATAAGGGTTCGCATACTAAATCACATACTAAATTACATGAAGGTTCGCAT
* * *
45057179 GCTAAATTATATACTAAATTACATGAAGGTTTGCATACTAAAA
66 ACTAAATAATATACTAAATTACATGAGGGTTTGCATACTAAAA
* * * * * *
45057222 CACATACTGAATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTGGTAT
1 CACATACTAAATTACATAAGGGTTCGCATACTAAATCACATACTAAATTACATGAAGGTTCGCAT
**
45057287 ACTAAATAATATACTAAATTACATGAGGGTTTGCATACTAAGT
66 ACTAAATAATATACTAAATTACATGAGGGTTTGCATACTAAAA
* * * *
45057330 CATATACTAAATTACATGAGGGTTTGCATACTAAATCACATACGAAATTACATGAAGGTTCGCAT
1 CACATACTAAATTACATAAGGGTTCGCATACTAAATCACATACTAAATTACATGAAGGTTCGCAT
* * *
45057395 CCTAAATCATATACTAAATTACTTGAGGGTTT
66 ACTAAATAATATACTAAATTACATGAGGGTTT
45057427 AACATAGTGG
Statistics
Matches: 177, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
108 177 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (108 bp):
CACATACTAAATTACATAAGGGTTCGCATACTAAATCACATACTAAATTACATGAAGGTTCGCAT
ACTAAATAATATACTAAATTACATGAGGGTTTGCATACTAAAA
Found at i:45057568 original size:24 final size:24
Alignment explanation
Indices: 45057532--45057588 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
45057522 TATCATTTAC
*
45057532 TAAGGGTTTGCAGTACAGTTAGCA
1 TAAGGGTTCGCAGTACAGTTAGCA
45057556 TAAGGGTTCGCAGTACAGTTAGCA
1 TAAGGGTTCGCAGTACAGTTAGCA
45057580 TAAGGGTTC
1 TAAGGGTTC
45057589 ACATAATAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (24 bp):
TAAGGGTTCGCAGTACAGTTAGCA
Found at i:45058893 original size:9 final size:10
Alignment explanation
Indices: 45058874--45058921 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
45058864 TTTTTATTTC
45058874 TATATATATT
1 TATATATATT
45058884 TATA-ATATT
1 TATATATATT
45058893 T-TATAT-TT
1 TATATATATT
45058901 TATATAGTATT
1 TATATA-TATT
*
45058912 TTTATA-ATT
1 TATATATATT
45058921 T
1 T
45058922 TTATTTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
8 5 0.15
9 16 0.48
10 5 0.15
11 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TATATATATT
Found at i:45058900 original size:28 final size:28
Alignment explanation
Indices: 45058864--45059035 Score: 87
Period size: 27 Copynumber: 6.2 Consensus size: 28
45058854 TTTTTACATG
*
45058864 TTTTTAT-TTCTATATA-TA-TTTATAA
1 TTTTTATATTTTATATAGTATTTTATAA
45058889 TATTTTATATTTTATATAGTATTTTTATAA
1 T-TTTTATATTTTATATAGTA-TTTTATAA
* * * *
45058919 -TTTT-TATTTTATGTAATTGATTTTTTTA
1 TTTTTATATTTTATAT-AGT-ATTTTATAA
* * * *
45058947 TTTTTTTATTTTAATTTAATAATTTTA-CA
1 TTTTTATATTTT-ATATAGT-ATTTTATAA
*
45058976 TTTTTATA-TTTATATAATATTTATATAA
1 TTTTTATATTTTATATAGTATTT-TATAA
45059004 GTTTTTAATATATTT-TATA-TA--TTATAA
1 -TTTTT-ATAT-TTTATATAGTATTTTATAA
45059031 TTTTT
1 TTTTT
45059036 TAAATATTCT
Statistics
Matches: 118, Mismatches: 13, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
25 1 0.01
26 15 0.13
27 30 0.25
28 19 0.16
29 18 0.15
30 25 0.21
31 7 0.06
32 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTATATTTTATATAGTATTTTATAA
Found at i:45058924 original size:29 final size:29
Alignment explanation
Indices: 45058877--45059024 Score: 108
Period size: 29 Copynumber: 5.0 Consensus size: 29
45058867 TTATTTCTAT
*
45058877 ATATATTTATAATATTTTATATTTTATATA
1 ATATTTTTATAAT-TTTTATATTTTATATA
* *
45058907 GTATTTTTATAA-TTTT-TATTTTATGTA
1 ATATTTTTATAATTTTTATATTTTATATA
* * *
45058934 ATTGATTTTT-TTATTTTTTTATTTTAATTTA
1 A-T-ATTTTTATAATTTTTATATTTT-ATATA
* *
45058965 ATAATTTTA-CATTTTTATA-TTTATATA
1 ATATTTTTATAATTTTTATATTTTATATA
*
45058992 ATATTTATATAAGTTTTTAATATATTTTATATA
1 ATATTTTTATAA--TTTT--TATATTTTATATA
45059025 TTATAATTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
27 21 0.23
28 11 0.12
29 23 0.25
30 21 0.23
31 5 0.05
32 4 0.04
33 8 0.09
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.64
Consensus pattern (29 bp):
ATATTTTTATAATTTTTATATTTTATATA
Found at i:45058972 original size:30 final size:31
Alignment explanation
Indices: 45058910--45058972 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
45058900 TTATATAGTA
*
45058910 TTTTTATAATTTTTATTTTATGTAATTGATT
1 TTTTTATAATTTTTATTTTATGTAATTAATT
* *
45058941 TTTTTAT-TTTTTTATTTTAATTTAA-TAATT
1 TTTTTATAATTTTTATTTT-ATGTAATTAATT
45058971 TT
1 TT
45058973 ACATTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.71
Consensus pattern (31 bp):
TTTTTATAATTTTTATTTTATGTAATTAATT
Found at i:45058993 original size:27 final size:27
Alignment explanation
Indices: 45058850--45058994 Score: 73
Period size: 29 Copynumber: 5.1 Consensus size: 27
45058840 ATAAATCTTT
*
45058850 ATAATTTTTACATGTTTT-TATTTCTAT-
1 ATAA-TTTTACAT-TTTTATATTTATATA
45058877 ATATATTTATA-ATATTTTATATTTTATATA
1 ATA-ATTT-TACAT-TTTTATA-TTTATATA
* * * *
45058907 GTATTTTTATAATTTTTAT-TTTATGTA
1 ATAATTTTA-CATTTTTATATTTATATA
* ** * *
45058934 ATTGATTTTTTTATTTTTTTATTTTAATTTA
1 A-T-AATTTTACATTTTTATA-TTT-ATATA
45058965 ATAATTTTACATTTTTATATTTATATA
1 ATAATTTTACATTTTTATATTTATATA
45058992 ATA
1 ATA
45058995 TTTATATAAG
Statistics
Matches: 91, Mismatches: 15, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
27 26 0.29
28 18 0.20
29 34 0.37
30 8 0.09
31 5 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
ATAATTTTACATTTTTATATTTATATA
Found at i:45059015 original size:26 final size:27
Alignment explanation
Indices: 45058986--45059042 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
45058976 TTTTTATATT
*
45058986 TATATAATATTTA-TATAAGTTTTTAA
1 TATATAATATATATTATAAGTTTTTAA
** *
45059012 TATATTTTATATATTATAATTTTTTAA
1 TATATAATATATATTATAAGTTTTTAA
45059039 -ATAT
1 TATAT
45059043 TCTTTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TATATAATATATATTATAAGTTTTTAA
Found at i:45059057 original size:27 final size:27
Alignment explanation
Indices: 45058992--45059058 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
45058982 TATTTATATA
*
45058992 ATATTTATATAAGTTTTTAATATATTTT
1 ATATTTA-ATAATTTTTTAATATATTTT
45059020 ATATATT-ATAATTTTTTAA-ATATTCTT
1 ATAT-TTAATAATTTTTTAATATATT-TT
45059047 -TAATTTAATAAT
1 AT-ATTTAATAAT
45059059 ATATAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
26 8 0.24
27 20 0.59
28 4 0.12
29 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (27 bp):
ATATTTAATAATTTTTTAATATATTTT
Found at i:45071400 original size:25 final size:25
Alignment explanation
Indices: 45071372--45071421 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
45071362 TTGATAAGTT
45071372 AGTTGAATTATACATTTATGAGATC
1 AGTTGAATTATACATTTATGAGATC
45071397 AGTTGAATTATACATTTATGAGATC
1 AGTTGAATTATACATTTATGAGATC
45071422 GTGCCTTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (25 bp):
AGTTGAATTATACATTTATGAGATC
Found at i:45091604 original size:13 final size:13
Alignment explanation
Indices: 45091586--45091610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45091576 TCATAATATA
45091586 AAATAAAATAAAT
1 AAATAAAATAAAT
45091599 AAATAAAATAAA
1 AAATAAAATAAA
45091611 AAGTATAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:45092751 original size:37 final size:37
Alignment explanation
Indices: 45092709--45092819 Score: 118
Period size: 37 Copynumber: 3.0 Consensus size: 37
45092699 TTCAAATAAG
45092709 AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
1 AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
* * * * * * * * *
45092746 TAATA-TATTTT-AATTGTATTCAATAATTCAAATAAG
1 AAATATTATTTTGAGTT-AACTAAACAATTGAAAAAAT
45092782 AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
1 AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
45092819 A
1 A
45092820 TTAAACATAA
Statistics
Matches: 53, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
35 3 0.06
36 23 0.43
37 24 0.45
38 3 0.06
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (37 bp):
AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
Found at i:45092756 original size:73 final size:73
Alignment explanation
Indices: 45092669--45092818 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
45092659 TTGGATTGAT
45092669 AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
1 AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
45092734 AATTGAAA
66 AATTGAAA
45092742 AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
1 AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
45092807 AATTGAAA
66 AATTGAAA
45092815 AAAT
1 AAAT
45092819 ATTAAACATA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (73 bp):
AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
AATTGAAA
Found at i:45092787 original size:36 final size:37
Alignment explanation
Indices: 45092674--45092793 Score: 129
Period size: 37 Copynumber: 3.3 Consensus size: 37
45092664 TTGATAAATT
45092674 AATA-TATTTTAATTGTATTCAATAATTCAAATAAGA
1 AATATTATTTTAATTGTATTCAATAATTCAAATAAGA
* * * * * * * **
45092710 AATATTATTTTGAGTT-AACTAAACAATTGAAAAAATT
1 AATATTATTTT-AATTGTATTCAATAATTCAAATAAGA
45092747 AATA-TATTTTAATTGTATTCAATAATTCAAATAAGA
1 AATATTATTTTAATTGTATTCAATAATTCAAATAAGA
45092783 AATATTATTTT
1 AATATTATTTT
45092794 GAGTTAACTA
Statistics
Matches: 62, Mismatches: 18, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
35 3 0.05
36 27 0.44
37 29 0.47
38 3 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (37 bp):
AATATTATTTTAATTGTATTCAATAATTCAAATAAGA
Found at i:45092820 original size:33 final size:33
Alignment explanation
Indices: 45092709--45092822 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
45092699 TTCAAATAAG
45092709 AAATATTATTTTGAGTTAACTAAACAATTGAAA
1 AAATATTATTTTGAGTTAACTAAACAATTGAAA
* * * *
45092742 AAATTAATATATTTTAATTGTATTCAA-TAATTCAAAT-AAG
1 AAA-T-AT-TATTTTGA--G--TT-AACTAA-ACAATTGAAA
45092782 AAATATTATTTTGAGTTAACTAAACAATTGAAA
1 AAATATTATTTTGAGTTAACTAAACAATTGAAA
45092815 AAATATTA
1 AAATATTA
45092823 AACATAAACA
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
32 6 0.10
33 18 0.29
34 1 0.02
35 3 0.05
36 7 0.11
37 7 0.11
38 3 0.05
39 1 0.02
40 10 0.16
41 6 0.10
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (33 bp):
AAATATTATTTTGAGTTAACTAAACAATTGAAA
Found at i:45098632 original size:30 final size:29
Alignment explanation
Indices: 45098598--45098739 Score: 128
Period size: 29 Copynumber: 4.8 Consensus size: 29
45098588 AACGTCGATC
*
45098598 ATCGACAAATGAAAAGGGATAGCTTCGGCT
1 ATCGA-AAATGAAAAGGGATAGCTTCGACT
* *
45098628 ATCGAATACGAAAAGGGATAGCTTCGACT
1 ATCGAAAATGAAAAGGGATAGCTTCGACT
** * * *
45098657 ATCGATTATGAAAAGGGAT-GGTGACGACC
1 ATCGAAAATGAAAAGGGATAGCT-TCGACT
* *
45098686 ATC-AACAATGAAAAGGGATGGCTTTGACT
1 ATCGAA-AATGAAAAGGGATAGCTTCGACT
45098715 ATC-AAACTATGAAAAGGGATAGCTT
1 ATCGAAA--ATGAAAAGGGATAGCTT
45098740 TGGCTATCAA
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
28 4 0.04
29 65 0.71
30 23 0.25
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (29 bp):
ATCGAAAATGAAAAGGGATAGCTTCGACT
Found at i:45098644 original size:29 final size:30
Alignment explanation
Indices: 45098606--45098856 Score: 199
Period size: 30 Copynumber: 8.5 Consensus size: 30
45098596 TCATCGACAA
45098606 ATGAAAAGGGATAGCTTCGGCTATCGAA-T
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
* *
45098635 ACGAAAAGGGATAGCTTCGACTATCG-ATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
* * * * **
45098664 ATGAAAAGGGAT-GGTGACGACCATC-AACA
1 ATGAAAAGGGATAGCT-TCGGCTATCGAATT
* * * * *
45098693 ATGAAAAGGGATGGCTTTGACTATCAAACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
*
45098723 ATGAAAAGGGATAGCTTTGGCTATC-AATTT
1 ATGAAAAGGGATAGCTTCGGCTATCGAA-TT
* * * *
45098753 ATGAAAAGGGAT-GGTGACGGCCATCAAATT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAATT
* * * * *
45098783 ATGAAAAGGGATAGCTTCAGTTGTTGAACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
* *
45098813 ATGAAAAGGGATAACTTCGGTTATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATT
*
45098843 ACGAAAAGGGATAG
1 ATGAAAAGGGATAG
45098857 GTCAACCATC
Statistics
Matches: 177, Mismatches: 36, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.02
29 66 0.37
30 104 0.59
31 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATT
Found at i:45109249 original size:25 final size:25
Alignment explanation
Indices: 45109220--45109316 Score: 99
Period size: 25 Copynumber: 3.9 Consensus size: 25
45109210 CTACAAACTC
45109220 TCTAGATAATATGCCACAAAGGCTT
1 TCTAGATAATATGCCACAAAGGCTT
* * *
45109245 TCTAGGTAAAACGCCACAAAGGCTCT
1 TCTAGATAATATGCCACAAAGGCT-T
* * *
45109271 TC-AAATAATCTGCCACAAAGGCTC
1 TCTAGATAATATGCCACAAAGGCTT
*
45109295 TCCAGATAAT-TCGCCACAAAGG
1 TCTAGATAATAT-GCCACAAAGG
45109317 TTTAGTTTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
24 3 0.05
25 53 0.90
26 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (25 bp):
TCTAGATAATATGCCACAAAGGCTT
Found at i:45112002 original size:25 final size:25
Alignment explanation
Indices: 45111967--45112183 Score: 175
Period size: 25 Copynumber: 8.7 Consensus size: 25
45111957 CACACCGTAA
* *
45111967 CTCTCAGGAGCTTCCCGATATTTAG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
45111992 CTCTTATGAGCATCCCGATATGTGG
1 CTCTCATGAGCTTCCCGATATTTGG
* *
45112017 CTCTCACGAGCTTCCTGATATTTGG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
45112042 CTCCCACGAGCTTCCTGATATTTGG
1 CTCTCATGAGCTTCCCGATATTTGG
*
45112067 CTCTCATGAGCTTCCCGAT-TAATGG
1 CTCTCATGAGCTTCCCGATAT-TTGG
** * *
45112092 CTCTTTTGAGCTTCCCGATAATTAG
1 CTCTCATGAGCTTCCCGATATTTGG
* * * ***
45112117 CTCACATGAGCTTTCCGTTATACAG
1 CTCTCATGAGCTTCCCGATATTTGG
* * *
45112142 CTCACATGAGCTTCCCGTTATATGG
1 CTCTCATGAGCTTCCCGATATTTGG
** *
45112167 CTCGAAAGAGCTTCCCG
1 CTCTCATGAGCTTCCCG
45112184 TTTACATGCT
Statistics
Matches: 156, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
24 1 0.01
25 155 0.99
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATTTGG
Found at i:45112103 original size:75 final size:75
Alignment explanation
Indices: 45111974--45112183 Score: 201
Period size: 75 Copynumber: 2.8 Consensus size: 75
45111964 TAACTCTCAG
* * * * *
45111974 GAGCTTCCCGATATTTAGCTCTTATGAGCATCCCGA-TATGTGGCTCTCACGAGCTTCCTGATAT
1 GAGCTT-CCGATATTTAGCTCTCATGAGCTTCCCGATTATATGGCTCTCACGAGCTTCCCGATAA
* *
45112038 TTGGCTCCCAC
65 TTAGCTCACAC
* ***
45112049 GAGCTTCCTGATATTTGGCTCTCATGAGCTTCCCGATTA-ATGGCTCTTTTGAGCTTCCCGATAA
1 GAGCTTCC-GATATTTAGCTCTCATGAGCTTCCCGATTATATGGCTCTCACGAGCTTCCCGATAA
*
45112113 TTAGCTCACAT
65 TTAGCTCACAC
* ** * ** *
45112124 GAGCTTTCCGTTATACAGCTCACATGAGCTTCCCG-TTATATGGCTCGAAAGAGCTTCCCG
1 GAGC-TTCCGATATTTAGCTCTCATGAGCTTCCCGATTATATGGCTCTCACGAGCTTCCCG
45112184 TTTACATGCT
Statistics
Matches: 110, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
74 5 0.05
75 99 0.90
76 6 0.05
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (75 bp):
GAGCTTCCGATATTTAGCTCTCATGAGCTTCCCGATTATATGGCTCTCACGAGCTTCCCGATAAT
TAGCTCACAC
Found at i:45112202 original size:25 final size:25
Alignment explanation
Indices: 45112122--45112202 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
45112112 ATTAGCTCAC
*
45112122 ATGAGCTTTCCGTTATACA-GCTC-A
1 ATGAGCTTCCCGTT-TACATGCTCGA
*
45112146 CATGAGCTTCCCG-TTATATGGCTCGA
1 -ATGAGCTTCCCGTTTACAT-GCTCGA
* *
45112172 AAGAGCTTCCCGTTTACATGCTCGT
1 ATGAGCTTCCCGTTTACATGCTCGA
45112197 ATGAGC
1 ATGAGC
45112203 ATACATGTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 3 0.07
24 1 0.02
25 36 0.78
26 6 0.13
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTTACATGCTCGA
Found at i:45116688 original size:19 final size:20
Alignment explanation
Indices: 45116666--45116704 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45116656 CTTTTTCAAT
45116666 TTTTTA-AAAAAAATTAAAA
1 TTTTTAGAAAAAAATTAAAA
*
45116685 TTTTTAGAAAAAATTTAAAA
1 TTTTTAGAAAAAAATTAAAA
45116705 AATTTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TTTTTAGAAAAAAATTAAAA
Found at i:45116718 original size:22 final size:24
Alignment explanation
Indices: 45116694--45116737 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
45116684 ATTTTTAGAA
45116694 AAAATTT-AAAAA-ATTT-TATTC
1 AAAATTTGAAAAACATTTATATTC
45116715 AAAATTTGAAAAACATTTATATT
1 AAAATTTGAAAAACATTTATATT
45116738 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 4 0.20
24 4 0.20
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (24 bp):
AAAATTTGAAAAACATTTATATTC
Found at i:45117084 original size:33 final size:34
Alignment explanation
Indices: 45117047--45117113 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
45117037 AAATAAATTC
* *
45117047 AATTCTTTTT-ATATCAAGTAAATATAATTATTT
1 AATTCTTTTTCACATCAAATAAATATAATTATTT
*
45117080 AATTCTTTTTCACATTAAATAAATATAATTATTT
1 AATTCTTTTTCACATCAAATAAATATAATTATTT
45117114 TTGTATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (34 bp):
AATTCTTTTTCACATCAAATAAATATAATTATTT
Found at i:45120955 original size:6 final size:6
Alignment explanation
Indices: 45120944--45120970 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
45120934 TCATTCCCAT
45120944 CTGCAG CTGCAG CTGCAG CTGCAG CTG
1 CTGCAG CTGCAG CTGCAG CTGCAG CTG
45120971 TAGCAGTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.19
Consensus pattern (6 bp):
CTGCAG
Found at i:45122111 original size:47 final size:47
Alignment explanation
Indices: 45122057--45122150 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
45122047 GAATTTTATG
45122057 AGTGCAGAATTTACATCATAAAATCATGTTAATAAAATTTAAGTATA
1 AGTGCAGAATTTACATCATAAAATCATGTTAATAAAATTTAAGTATA
*
45122104 AGTGCAGAATTTACATTATAAAATCATGTTAATAAAATTTAAGTATA
1 AGTGCAGAATTTACATCATAAAATCATGTTAATAAAATTTAAGTATA
45122151 GAATATAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (47 bp):
AGTGCAGAATTTACATCATAAAATCATGTTAATAAAATTTAAGTATA
Found at i:45123063 original size:16 final size:15
Alignment explanation
Indices: 45123021--45123069 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
45123011 CATGCATTAT
* *
45123021 AAAAGAAGAAAAGAA
1 AAAAAAAGAAAATAA
*
45123036 AAATAAAGGAAAATAA
1 AAA-AAAAGAAAATAA
45123052 AGAAAAAAGAAAATAA
1 A-AAAAAAGAAAATAA
45123068 AA
1 AA
45123070 GAATTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 22 0.79
17 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (15 bp):
AAAAAAAGAAAATAA
Found at i:45130812 original size:34 final size:34
Alignment explanation
Indices: 45130756--45130878 Score: 129
Period size: 34 Copynumber: 3.6 Consensus size: 34
45130746 TCTGATATGG
* * *
45130756 TATGGCATTCTGATATGATATATGTTTTTGAAAA
1 TATGACATTCTAATTTGATATATGTTTTTGAAAA
* * * *
45130790 TATGATATTCTAATTTGGTATATGTTTCTGGAAA
1 TATGACATTCTAATTTGATATATGTTTTTGAAAA
* **
45130824 TATGACATTCTGATTTGATATATGTTTTTGGTAA
1 TATGACATTCTAATTTGATATATGTTTTTGAAAA
* * *
45130858 TGTGACATTCTGATATGATAT
1 TATGACATTCTAATTTGATAT
45130879 TTGTATATGT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 75 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (34 bp):
TATGACATTCTAATTTGATATATGTTTTTGAAAA
Found at i:45132745 original size:17 final size:19
Alignment explanation
Indices: 45132718--45132757 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
45132708 ATTTCATGTA
45132718 TTTTATAATATTTTA-AAT
1 TTTTATAATATTTTAGAAT
45132736 TTTTAT-ATATTTTAGAAT
1 TTTTATAATATTTTAGAAT
45132754 TTTT
1 TTTT
45132758 CGTGAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAATATTTTAGAAT
Found at i:45135863 original size:17 final size:17
Alignment explanation
Indices: 45135841--45135891 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
45135831 ATGTAGTCAT
*
45135841 TTGAAAAACTTTCAAAA
1 TTGAAAAACTTTAAAAA
* *
45135858 TTGAAATATTTTAAAAA
1 TTGAAAAACTTTAAAAA
*
45135875 TT-AAAAATGTTTAAAAA
1 TTGAAAAA-CTTTAAAAA
45135892 CTATTTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (17 bp):
TTGAAAAACTTTAAAAA
Found at i:45140727 original size:27 final size:29
Alignment explanation
Indices: 45140696--45140765 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
45140686 AAATTTTGTT
*
45140696 ATATATATACATTCATAC-A-TTTTTATA
1 ATATATATACATACATACAATTTTTTATA
* *
45140723 ATATATATATACACATACATATTTTTTATA
1 ATATATATACATACATACA-ATTTTTTATA
45140753 ATATATATACATA
1 ATATATATACATA
45140766 TGCCTACTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 15 0.43
29 1 0.03
30 19 0.54
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (29 bp):
ATATATATACATACATACAATTTTTTATA
Found at i:45142140 original size:49 final size:49
Alignment explanation
Indices: 45142087--45142185 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
45142077 TAAATGTACG
45142087 ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
1 ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
45142136 ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
1 ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
45142185 A
1 A
45142186 CTTTTTTGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.15, C:0.14, G:0.12, T:0.59
Consensus pattern (49 bp):
ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
Found at i:45143166 original size:24 final size:25
Alignment explanation
Indices: 45143121--45143174 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
45143111 TCTTTTTGCA
*
45143121 TTCATTCCATGCATCTGCATTACAT
1 TTCATTCCATGCATCTGCATTAAAT
* * *
45143146 TTCATTGCAT-CATTTGTATTAAAT
1 TTCATTCCATGCATCTGCATTAAAT
45143170 TTCAT
1 TTCAT
45143175 GAAAGAGCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (25 bp):
TTCATTCCATGCATCTGCATTAAAT
Found at i:45145903 original size:12 final size:11
Alignment explanation
Indices: 45145882--45145930 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
45145872 TAGTGGAGGC
45145882 AAAAAAAAGAG
1 AAAAAAAAGAG
45145893 AAAAAAGAAGAG
1 AAAAAA-AAGAG
*
45145905 AAAAAAAATA-
1 AAAAAAAAGAG
45145915 AAAAATAAA-AG
1 AAAAA-AAAGAG
45145926 AAAAA
1 AAAAA
45145931 GAAATAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 6 0.18
11 17 0.50
12 11 0.32
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:45145919 original size:23 final size:21
Alignment explanation
Indices: 45145882--45145957 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 21
45145872 TAGTGGAGGC
* *
45145882 AAAAAAAAGAGAAAAAAGAAGA
1 AAAAAAAATA-AAAAAAAAAGA
45145904 GAAAAAAAATAAAAAATAAAAGA
1 -AAAAAAAATAAAAAA-AAAAGA
*
45145927 AAAAGAAATAAGAAAATAAAA-A
1 AAAAAAAATAA-AAAA-AAAAGA
45145949 ACAAAAAAA
1 A-AAAAAAA
45145958 CCTCTACTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 17 0.37
23 29 0.63
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.05
Consensus pattern (21 bp):
AAAAAAAATAAAAAAAAAAGA
Found at i:45145935 original size:22 final size:21
Alignment explanation
Indices: 45145883--45145957 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
45145873 AGTGGAGGCA
* * *
45145883 AAAAAAAGAGAAAAAAGAAGAG
1 AAAAAAA-ATAAAAAATAAAAG
45145905 AAAAAAAATAAAAAATAAAAG
1 AAAAAAAATAAAAAATAAAAG
*
45145926 AAAAAGAAATAAGAAAATAAAAA
1 AAAAA-AAATAA-AAAATAAAAG
45145949 ACAAAAAAA
1 A-AAAAAAA
45145958 CCTCTACTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
21 16 0.35
22 13 0.28
23 13 0.28
24 4 0.09
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.05
Consensus pattern (21 bp):
AAAAAAAATAAAAAATAAAAG
Found at i:45145940 original size:39 final size:38
Alignment explanation
Indices: 45145882--45145957 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
45145872 TAGTGGAGGC
*
45145882 AAAAAAAAGAGAAAAAAGAAGAGAAAAAAAATAAAAAAT
1 AAAAAAAAGAGAAAAAAGAAAAGAAAAAAAA-AAAAAAT
* * *
45145921 AAAAGAAAA-AGAAATAAGAAAATAAAAAACAAAAAAA
1 AAAA-AAAAGAGAAAAAAGAAAAGAAAAAAAAAAAAAA
45145958 CCTCTACTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 6 0.19
39 22 0.69
40 4 0.12
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.05
Consensus pattern (38 bp):
AAAAAAAAGAGAAAAAAGAAAAGAAAAAAAAAAAAAAT
Found at i:45145949 original size:7 final size:7
Alignment explanation
Indices: 45145907--45145956 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
45145897 AAGAAGAGAA
45145907 AAAAAAT
1 AAAAAAT
45145914 AAAAAAT
1 AAAAAAT
45145921 AAAAGAA-
1 AAAA-AAT
45145928 AAAGAAAT
1 AAA-AAAT
45145936 AAGAAAAT
1 AA-AAAAT
*
45145944 AAAAAAC
1 AAAAAAT
45145951 AAAAAA
1 AAAAAA
45145957 ACCTCTACTG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
7 26 0.68
8 11 0.29
9 1 0.03
ACGTcount: A:0.84, C:0.02, G:0.06, T:0.08
Consensus pattern (7 bp):
AAAAAAT
Found at i:45146414 original size:6 final size:6
Alignment explanation
Indices: 45146403--45146450 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
45146393 AAAAAGGAAC
*
45146403 AAAAAG AAAAAG AAAAAG -AAAAG -AAAAG AAGAACG AAAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG -AAAAAG AAAAAG
45146451 GAGAGTCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 10 0.27
6 19 0.51
7 6 0.16
8 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:45147671 original size:45 final size:45
Alignment explanation
Indices: 45147620--45147941 Score: 420
Period size: 45 Copynumber: 7.2 Consensus size: 45
45147610 GTGGAGTAAG
* *
45147620 TCGAAGATTGCAAGTCTTATCTTCCTGTATTGGCAGCGAAGTAGA
1 TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* * *
45147665 TCGAAGATAGCAGGTCTTGTATTCCTGTATTGGCAGCGAAATAGA
1 TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* *
45147710 -CTGAAGATAGC-AGATCTTTTCTTCCTGTATTGGCAGCAAAGTAGA
1 TC-GAAGATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* *
45147755 TCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGTAGCGAAGTAGA
1 TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
*
45147800 -CTGAAGATAGC-AGATCTTGTCTTCCTGTATTGGCAACGAAGTAGA
1 TC-GAAGATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* * * *
45147845 TTGAAGATAGTAGGTCTTGTCTTCCTGTATTGGCAACGAAGTAGA
1 TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* *
45147890 TCGAAGATAGC-AGATCTTTTCTTCCTGTATTGGCAGCGAAGCAGA
1 TCGAAGATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
45147935 TCGAAGA
1 TCGAAGA
45147942 CACCAGCATC
Statistics
Matches: 242, Mismatches: 26, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
44 5 0.02
45 234 0.97
46 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
Found at i:45147780 original size:90 final size:90
Alignment explanation
Indices: 45147634--45147941 Score: 501
Period size: 90 Copynumber: 3.4 Consensus size: 90
45147624 AGATTGCAAG
* *
45147634 TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTATTCCTGTATTGGC
1 TCTTTTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
*
45147699 AGCGAAATAGACTGAAGATAGCAGA
66 AGCGAAGTAGACTGAAGATAGCAGA
* *
45147724 TCTTTTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGT
1 TCTTTTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
45147789 AGCGAAGTAGACTGAAGATAGCAGA
66 AGCGAAGTAGACTGAAGATAGCAGA
* * * *
45147814 TCTTGTCTTCCTGTATTGGCAACGAAGTAGATTGAAGATAGTAGGTCTTGTCTTCCTGTATTGGC
1 TCTTTTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
*
45147879 AACGAAGTAGA-TCGAAGATAGCAGA
66 AGCGAAGTAGACT-GAAGATAGCAGA
*
45147904 TCTTTTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGA
1 TCTTTTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
45147942 CACCAGCATC
Statistics
Matches: 201, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
89 1 0.00
90 200 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (90 bp):
TCTTTTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
AGCGAAGTAGACTGAAGATAGCAGA
Found at i:45147868 original size:135 final size:135
Alignment explanation
Indices: 45147620--45147941 Score: 475
Period size: 135 Copynumber: 2.4 Consensus size: 135
45147610 GTGGAGTAAG
* * *
45147620 TCGAAGATTGCAAGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGT
1 TCGAAGATAGCAGGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
* * *
45147685 ATTCCTGTATTGGCAGCGAAATAGACTGAAGATAGCAGATCTTTTCTTCCTGTATTGGCAGCAAA
66 ATTCCTGTATTGGCAACGAAATAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAACAAA
45147750 GTAGA
131 GTAGA
* *
45147755 TCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGTAGCGAAGTAGA-CTGAAGATAGCAGATCTTG
1 TCGAAGATAGCAGGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAGCAGATCTTG
* * * * * *
45147819 TCTTCCTGTATTGGCAACGAAGTAGATTGAAGATAGTAGGTCTTGTCTTCCTGTATTGGCAACGA
65 TATTCCTGTATTGGCAACGAAATAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAACAA
45147884 AGTAGA
130 AGTAGA
* * *
45147890 TCGAAGATAGCAGATCTTTTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGA
1 TCGAAGATAGCAGGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
45147942 CACCAGCATC
Statistics
Matches: 167, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
134 1 0.01
135 165 0.99
136 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (135 bp):
TCGAAGATAGCAGGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
ATTCCTGTATTGGCAACGAAATAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAACAAA
GTAGA
Found at i:45148169 original size:50 final size:50
Alignment explanation
Indices: 45148115--45148412 Score: 235
Period size: 50 Copynumber: 6.0 Consensus size: 50
45148105 GTAGTGGAAC
* * ** *
45148115 AGATTGAAGCTACAACAGCGAATCTTGTTTCCTCGATATTGTAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAAAA
* * * * * ** *
45148165 AGATTTAAGCCACAACGACGAATCTTACTTCC-CTAGCAGTG-CAGCAGAAT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGA-CATTGTAATTA-AAA
* * * * **
45148215 AGATTGAAGCTACAACGGCAAATCTTACTTCCCCGATATTACAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAAAA
* * * * * * * *
45148265 AGATTGAAGCCACAACAGTGAATCTTACTTCCTTGGCAGTGCAA-CAGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTA-AAA
* * * *
45148315 AGATTGAAGCTACAACGGCGAATCTTGCTTCAC-CAATATTGTAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTC-CTCGACATTGTAATTAAAA
* *
45148365 AGATTGAAGCCACAACGGCGGATCTTACTTCCTCGACATTGTAGTTAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAA
45148413 TTAGACAGAA
Statistics
Matches: 185, Mismatches: 55, Indels: 16
0.72 0.21 0.06
Matches are distributed among these distances:
49 6 0.03
50 173 0.94
51 6 0.03
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAAAA
Found at i:45148397 original size:100 final size:99
Alignment explanation
Indices: 45148111--45148397 Score: 403
Period size: 100 Copynumber: 2.9 Consensus size: 99
45148101 CGATGTAGTG
* * *
45148111 GAACAGATTGAAGCTACAACAGCGAATCTTGTTTCCTCGATATTGTAATTAAAAAGATTTAAGCC
1 GAACAGATTGAAGCTACAACGGCGAATCTTGCTTCC-CGATATTGTAATTAAAAAGATTGAAGCC
* * *
45148176 ACAACGACGAATCTTACTTCCCTAGCAGTGCAGCA
65 ACAACGGCGAATCTTACTTCCTTAGCAGTGCAACA
* * * **
45148211 GAATAGATTGAAGCTACAACGGCAAATCTTACTTCCCCGATATTACAATTAAAAAGATTGAAGCC
1 GAACAGATTGAAGCTACAACGGCGAATCTTGCTT-CCCGATATTGTAATTAAAAAGATTGAAGCC
* * *
45148276 ACAACAGTGAATCTTACTTCCTTGGCAGTGCAACA
65 ACAACGGCGAATCTTACTTCCTTAGCAGTGCAACA
*
45148311 GAACAGATTGAAGCTACAACGGCGAATCTTGCTTCACCAATATTGTAATTAAAAAGATTGAAGCC
1 GAACAGATTGAAGCTACAACGGCGAATCTTGCTTC-CCGATATTGTAATTAAAAAGATTGAAGCC
*
45148376 ACAACGGCGGATCTTACTTCCT
65 ACAACGGCGAATCTTACTTCCT
45148398 CGACATTGTA
Statistics
Matches: 162, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
99 1 0.01
100 159 0.98
101 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (99 bp):
GAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCGATATTGTAATTAAAAAGATTGAAGCCA
CAACGGCGAATCTTACTTCCTTAGCAGTGCAACA
Found at i:45148635 original size:44 final size:45
Alignment explanation
Indices: 45148531--45148638 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 45
45148521 GTCTTAGCCT
* * * *
45148531 CCTGAAGTTACAGTGGGGCAGACTGAAGATAACGAGTCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCCTATCTC
* * *
45148576 CCTGAAGTTGCAGTGGAGCAGACTGAAGCT-ACTAATCCTATTTC
1 CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCCTATCTC
*
45148620 CCTGAAATTGCAGTGGAGC
1 CCTGAAGTTGCAGTGGAGC
45148639 GAATTAAACC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 28 0.51
45 27 0.49
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (45 bp):
CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCCTATCTC
Found at i:45150489 original size:28 final size:29
Alignment explanation
Indices: 45150427--45150498 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
45150417 CAAATTTTGT
* *
45150427 TATATATATACATTCATACATTTTTATAA
1 TATATATACACATACATACATTTTTATAA
*
45150456 TATATATACACATACATA-TTTTTTATAA
1 TATATATACACATACATACATTTTTATAA
* *
45150484 TTTATATACATATAC
1 TATATATACACATAC
45150499 CTACTTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
28 22 0.58
29 16 0.42
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (29 bp):
TATATATACACATACATACATTTTTATAA
Found at i:45156820 original size:9 final size:9
Alignment explanation
Indices: 45156806--45156849 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
45156796 TGCAAACATT
45156806 AGAAAAGAA
1 AGAAAAGAA
45156815 AGAAAAAGAA
1 AG-AAAAGAA
45156825 A-AGAAAGAA
1 AGA-AAAGAA
*
45156834 AGAAAAGAG
1 AGAAAAGAA
45156843 AGAAAAG
1 AGAAAAG
45156850 GGCGCACGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 1 0.03
9 21 0.68
10 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:45156826 original size:15 final size:15
Alignment explanation
Indices: 45156806--45156848 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
45156796 TGCAAACATT
45156806 AGAAAAGAAAGAAAA
1 AGAAAAGAAAGAAAA
45156821 AGAAAAGAAAG--AA
1 AGAAAAGAAAGAAAA
*
45156834 AGAAAAGAGAGAAAA
1 AGAAAAGAAAGAAAA
45156849 GGGCGCACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAGAAAA
Found at i:45157982 original size:19 final size:18
Alignment explanation
Indices: 45157948--45157989 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
45157938 AATGACAAAG
45157948 ATGAAAAATGAATATGAA
1 ATGAAAAATGAATATGAA
* *
45157966 ATGAGAAATGAAATATGGA
1 ATGAAAAATG-AATATGAA
45157985 ATGAA
1 ATGAA
45157990 GTAATGAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (18 bp):
ATGAAAAATGAATATGAA
Found at i:45159825 original size:14 final size:14
Alignment explanation
Indices: 45159806--45159833 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45159796 GGGTTGTTGT
45159806 GAAATTATTGCAAA
1 GAAATTATTGCAAA
45159820 GAAATTATTGCAAA
1 GAAATTATTGCAAA
45159834 AAAGGGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
GAAATTATTGCAAA
Found at i:45160405 original size:21 final size:21
Alignment explanation
Indices: 45160384--45160674 Score: 155
Period size: 21 Copynumber: 14.0 Consensus size: 21
45160374 CTTTCCGTTT
* *
45160384 AACTCTTACGAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* *
45160405 AACTCATATGAG-TTTTCGTTC
1 AACTCTTATGAGCTTCT-GTTC
* *
45160426 AACTCTTTTGAGCTTCTATTC
1 AACTCTTATGAGCTTCTGTTC
45160447 AACTCTTATGAG-TTGCTGTTC
1 AACTCTTATGAGCTT-CTGTTC
* *
45160468 AGCTCTTATAAGCTTCTGTTC
1 AACTCTTATGAGCTTCTGTTC
* * * *
45160489 ATCTCATATGAGTTTCCGTTC
1 AACTCTTATGAGCTTCTGTTC
* * * *
45160510 AGCTTTTTTGAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* * * *
45160531 AACCCTAATG-GGTTTTCGTTC
1 AACTCTTATGAGCTTCT-GTTC
* * * *
45160552 AATTCTTTTAAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* *
45160573 AAC-CATTATG-GGTTTTCGTTC
1 AACTC-TTATGAGCTTCT-GTTC
* * *
45160594 AGCTCTTTTGAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* * * * *
45160615 TACCCTTATGGGTTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
*
45160636 AGCTCTTATGAGCTTCTGTTC
1 AACTCTTATGAGCTTCTGTTC
* *
45160657 AGCT-TT-CGAGCTTCTGTT
1 AACTCTTATGAGCTTCTGTT
45160675 AACGATATAC
Statistics
Matches: 196, Mismatches: 64, Indels: 22
0.70 0.23 0.08
Matches are distributed among these distances:
19 11 0.06
20 16 0.08
21 155 0.79
22 14 0.07
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.46
Consensus pattern (21 bp):
AACTCTTATGAGCTTCTGTTC
Found at i:45160431 original size:42 final size:42
Alignment explanation
Indices: 45160393--45160655 Score: 255
Period size: 42 Copynumber: 6.3 Consensus size: 42
45160383 TAACTCTTAC
*
45160393 GAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAACTCTTTT
1 GAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTTTT
* * * * *
45160435 GAGCTTCTATTCAACTCTTATGAG-TTGCTGTTCAGCTCTTAT
1 GAGCTTCTGTTTAACTCATATGAGTTTTC-GTTCAGCTCTTTT
* * * * *
45160477 AAGCTTCTGTTCATCTCATATGAGTTTCCGTTCAGCTTTTTT
1 GAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTTTT
* * **
45160519 GAGCTTCTGTTTAAC-CCTAATGGGTTTTCGTTCAATTCTTTT
1 GAGCTTCTGTTTAACTCAT-ATGAGTTTTCGTTCAGCTCTTTT
* *
45160561 AAGCTTCTGTTTAAC-CATTATGGGTTTTCGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCA-TATGAGTTTTCGTTCAGCTCTTTT
* * * * * *
45160603 GAGCTTCTGTTTTACCCTTATG-GGTTTCTGTTTAGCTCTTAT
1 GAGCTTCTGTTTAACTCATATGAGTTTTC-GTTCAGCTCTTTT
45160645 GAGCTTCTGTT
1 GAGCTTCTGTT
45160656 CAGCTTTCGA
Statistics
Matches: 183, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
41 10 0.05
42 168 0.92
43 5 0.03
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (42 bp):
GAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTTTT
Found at i:45160495 original size:84 final size:83
Alignment explanation
Indices: 45160394--45160657 Score: 314
Period size: 84 Copynumber: 3.1 Consensus size: 83
45160384 AACTCTTACG
* * * * * *
45160394 AGCTTCTGTTTAACTCATATGAGTTTTCGTTCAACTCTTTTGAGCTTCTATTCAACTCTTATGAG
1 AGCTTCTGTTCAACTCATATGAGTTTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
45160459 TTGCTGTTCAGCTCTTATA
66 TT-CTGTTCAGCTCTTATA
* * * *
45160478 AGCTTCTGTTCATCTCATATGAGTTTCCGTTCAGCTTTTTTGAGCTTCTGTTTAACCCTAATGGG
1 AGCTTCTGTTCAACTCATATGAGTTTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* ** *
45160543 TTTTCGTTCAATTCTTTTA
66 TTCT-GTTCAGCTCTTATA
* * *
45160562 AGCTTCTGTTTAAC-CATTATGGGTTTTCGTTCAGCTCTTTTGAGCTTCTGTTTTACCCTTATGG
1 AGCTTCTGTTCAACTCA-TATGAGTTTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGG
* *
45160626 GTTTCTGTTTAGCTCTTATG
65 G-TTCTGTTCAGCTCTTATA
45160646 AGCTTCTGTTCA
1 AGCTTCTGTTCA
45160658 GCTTTCGAGC
Statistics
Matches: 149, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
83 3 0.02
84 143 0.96
85 3 0.02
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (83 bp):
AGCTTCTGTTCAACTCATATGAGTTTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
TTCTGTTCAGCTCTTATA
Found at i:45162949 original size:35 final size:35
Alignment explanation
Indices: 45162910--45162979 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
45162900 GTCTAGGATC
*
45162910 ACATATCTCTGAAGATCACCTTCCATATTTGCCAA
1 ACATATCTCTGAAGATCACCTTCCATATTTACCAA
* *
45162945 ACATATCTTTGAAGATCACTTTCCATATTTACCAA
1 ACATATCTCTGAAGATCACCTTCCATATTTACCAA
45162980 GCTCCGGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (35 bp):
ACATATCTCTGAAGATCACCTTCCATATTTACCAA
Found at i:45167532 original size:35 final size:35
Alignment explanation
Indices: 45167485--45167555 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
45167475 TCTAGGATCA
*
45167485 CATATCTCTGAAGATCACATTCCATATTTGCCAAG
1 CATATCTCTGAAGATCACATTCCATATTTACCAAG
* **
45167520 CATATCTTTGAAGATCATTTTCCATATTTACCAAG
1 CATATCTCTGAAGATCACATTCCATATTTACCAAG
45167555 C
1 C
45167556 TCCGAATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (35 bp):
CATATCTCTGAAGATCACATTCCATATTTACCAAG
Found at i:45176389 original size:16 final size:17
Alignment explanation
Indices: 45176368--45176404 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
45176358 AAATAAAATG
45176368 CAAAAA-AACACAA-AAA
1 CAAAAATAA-ACAACAAA
45176384 CAAAAATAAACAACAAA
1 CAAAAATAAACAACAAA
45176401 CAAA
1 CAAA
45176405 CGCCATCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.78, C:0.19, G:0.00, T:0.03
Consensus pattern (17 bp):
CAAAAATAAACAACAAA
Found at i:45180199 original size:38 final size:38
Alignment explanation
Indices: 45180148--45180236 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
45180138 TATCACTGGT
*
45180148 ACAAAGCCTGAATATCACCAGCACAAAGCCTGCTAGGC
1 ACAAAGCCTGAATATCACCAGCACAAAGCCTACTAGGC
* *
45180186 ACAAAGCCTGAATATCACCGGCACGAAGCCTACTAGGC
1 ACAAAGCCTGAATATCACCAGCACAAAGCCTACTAGGC
* *
45180224 ACAGAGCCCGAAT
1 ACAAAGCCTGAAT
45180237 TAATGTTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.12
Consensus pattern (38 bp):
ACAAAGCCTGAATATCACCAGCACAAAGCCTACTAGGC
Found at i:45180214 original size:22 final size:22
Alignment explanation
Indices: 45180119--45180216 Score: 100
Period size: 22 Copynumber: 4.7 Consensus size: 22
45180109 TATATAATTA
*
45180119 CACCAGCACAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGAATAT
* *
45180141 CACTGGTACAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGAATAT
* *
45180163 CACCAGCACAAAGCCTG---CT
1 CACCGGCACAAAGCCTGAATAT
45180182 -A--GGCACAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGAATAT
*
45180201 CACCGGCACGAAGCCT
1 CACCGGCACAAAGCCT
45180217 ACTAGGCACA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
16 12 0.20
18 1 0.02
19 2 0.03
20 1 0.02
22 44 0.73
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (22 bp):
CACCGGCACAAAGCCTGAATAT
Found at i:45181992 original size:18 final size:18
Alignment explanation
Indices: 45181969--45182003 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45181959 CTAATTAACA
45181969 TAGAGGTAGACGTAGCAG
1 TAGAGGTAGACGTAGCAG
*
45181987 TAGAGGTAGAGGTAGCA
1 TAGAGGTAGACGTAGCA
45182004 TTGACTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.40, T:0.17
Consensus pattern (18 bp):
TAGAGGTAGACGTAGCAG
Found at i:45185297 original size:24 final size:24
Alignment explanation
Indices: 45185253--45185302 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
45185243 CATGTTCATA
* * * *
45185253 TTCATCTCCATCGTCGTCTTTGTC
1 TTCATCTCCACCCTCGGCTTTATC
45185277 TTCATCTCCACCCTCGGCTTTATC
1 TTCATCTCCACCCTCGGCTTTATC
45185301 TT
1 TT
45185303 TGTCCCCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.10, C:0.36, G:0.10, T:0.44
Consensus pattern (24 bp):
TTCATCTCCACCCTCGGCTTTATC
Found at i:45188723 original size:16 final size:16
Alignment explanation
Indices: 45188702--45188750 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
45188692 CTACTCTTAT
45188702 TAAAAATTATAAATCA
1 TAAAAATTATAAATCA
* *
45188718 TAAAAATAATAAATTTTA
1 TAAAAATTATAAA--TCA
45188736 TAAAAATTATTAAAT
1 TAAAAATTA-TAAAT
45188751 TTTAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 10 0.37
19 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAAAATTATAAATCA
Found at i:45188749 original size:19 final size:19
Alignment explanation
Indices: 45188717--45188765 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
45188707 ATTATAAATC
45188717 ATAAAAATAATAAATTTT-
1 ATAAAAATAATAAATTTTA
*
45188735 ATAAAAATTATTAAATTTTA
1 ATAAAAA-TAATAAATTTTA
45188755 ATAAAATATAA
1 ATAAAA-ATAA
45188766 AAAGTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 8 0.31
21 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAAAAATAATAAATTTTA
Found at i:45188816 original size:19 final size:19
Alignment explanation
Indices: 45188780--45188817 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45188770 TTATAATTTT
**
45188780 TTTTATAAAAATTGTAAAA
1 TTTTATAAAAATCATAAAA
45188799 TTTTATAAAAATCATAAAA
1 TTTTATAAAAATCATAAAA
45188818 AATTAATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTTATAAAAATCATAAAA
Found at i:45188967 original size:9 final size:9
Alignment explanation
Indices: 45188950--45189142 Score: 51
Period size: 9 Copynumber: 20.2 Consensus size: 9
45188940 TTTTGGTACA
*
45188950 ATAACTTTT
1 ATAATTTTT
45188959 ATAATTTTTTT
1 ATAA--TTTTT
*
45188970 ATGAAAT-TT
1 AT-AATTTTT
45188979 AT-ATTTTT
1 ATAATTTTT
*
45188987 TTACATTTTGT
1 ATA-ATTTT-T
45188998 ATAATTTTCTT
1 ATAA-TTT-TT
* *
45189009 ATGACTTTAT
1 AT-AATTTTT
*
45189019 AAAAT-TTT
1 ATAATTTTT
45189027 ATAATTTTT
1 ATAATTTTT
*
45189036 -TATATTTCT
1 ATA-ATTTTT
45189045 AT-ATATTTT
1 ATAAT-TTTT
*
45189054 ATAACTTTT
1 ATAATTTTT
*
45189063 ACAATTTTTTAT
1 ATAA--TTTT-T
45189075 ATATATTTTTT
1 ATA-A-TTTTT
*
45189086 ATGATTTTT
1 ATAATTTTT
45189095 AT-ATTTTT
1 ATAATTTTT
45189103 ATTCTAATTTTT
1 A---TAATTTTT
*
45189115 AATAAATTTT
1 -ATAATTTTT
*
45189125 -TAATATTT
1 ATAATTTTT
45189133 A-AATTTTT
1 ATAATTTTT
45189141 AT
1 AT
45189143 TAAAATTTAA
Statistics
Matches: 136, Mismatches: 22, Indels: 52
0.65 0.10 0.25
Matches are distributed among these distances:
7 2 0.01
8 33 0.24
9 37 0.27
10 19 0.14
11 25 0.18
12 18 0.13
13 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:45189036 original size:10 final size:10
Alignment explanation
Indices: 45188955--45189126 Score: 60
Period size: 10 Copynumber: 17.5 Consensus size: 10
45188945 GTACAATAAC
45188955 TTTTATAATTT
1 TTTTATAA-TT
45188966 TTTTATGAA--
1 TTTTAT-AATT
*
45188975 ATTTAT-ATT
1 TTTTATAATT
45188984 TTTT-TACATT
1 TTTTATA-ATT
*
45188994 TTGTATAATT
1 TTTTATAATT
*
45189004 TTCTTATGA--
1 TT-TTATAATT
* **
45189013 CTTTATAAAA
1 TTTTATAATT
45189023 TTTTATAATT
1 TTTTATAATT
45189033 TTTTAT-A-T
1 TTTTATAATT
* *
45189041 TTCTAT-ATA
1 TTTTATAATT
*
45189050 TTTTATAA-C
1 TTTTATAATT
*
45189059 TTTTACAATTT
1 TTTTATAA-TT
45189070 TTTATATATATT
1 TTT-TATA-ATT
*
45189082 TTTTATGA-T
1 TTTTATAATT
*
45189091 TTTTATATTT
1 TTTTATAATT
*
45189101 TTATTCTAATT
1 TT-TTATAATT
* *
45189112 TTTAATAAAT
1 TTTTATAATT
45189122 TTTTA
1 TTTTA
45189127 ATATTTAAAT
Statistics
Matches: 118, Mismatches: 26, Indels: 35
0.66 0.15 0.20
Matches are distributed among these distances:
7 1 0.01
8 13 0.11
9 29 0.25
10 38 0.32
11 26 0.22
12 10 0.08
13 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:45189133 original size:18 final size:18
Alignment explanation
Indices: 45189107--45189163 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
45189097 ATTTTTATTC
*
45189107 TAATTTTTAATAAATTTT
1 TAATATTTAATAAATTTT
**
45189125 TAATATTTAA-ATTTTTAT
1 TAATATTTAATAAATTT-T
*
45189143 TAAAATTTAATAATATTTT
1 TAATATTTAATAA-ATTTT
45189162 TA
1 TA
45189164 TCTTTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 4 0.13
18 19 0.63
19 4 0.13
20 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATATTTAATAAATTTT
Found at i:45189137 original size:26 final size:28
Alignment explanation
Indices: 45189108--45189160 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
45189098 TTTTTATTCT
*
45189108 AATTTTTAAT-AAATTT-TTAATATTTA
1 AATTTTTAATAAAATTTAATAATATTTA
*
45189134 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTTAATAATATTT
45189161 TTATCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 6 0.26
28 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
AATTTTTAATAAAATTTAATAATATTTA
Found at i:45189198 original size:36 final size:36
Alignment explanation
Indices: 45189107--45189198 Score: 89
Period size: 36 Copynumber: 2.6 Consensus size: 36
45189097 ATTTTTATTC
* *
45189107 TAATTTTTAATAAATTTTTAATATTTAAATTTTTAT
1 TAATTTTTAATAAATTTTTTATATTTAAATTATTAT
** * **
45189143 TAAAATTTAAT-AATATTTTTATCTTTTTATTGATT-T
1 TAATTTTTAATAAAT-TTTTTATATTTAAATT-ATTAT
45189179 TAATTTTTAATAAATTTTTT
1 TAATTTTTAATAAATTTTTT
45189199 TCTAATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
35 3 0.07
36 36 0.82
37 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (36 bp):
TAATTTTTAATAAATTTTTTATATTTAAATTATTAT
Found at i:45189377 original size:19 final size:19
Alignment explanation
Indices: 45189345--45189385 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
45189335 TTGAGGGCCT
45189345 TTTTAATATATTTTAAAAG
1 TTTTAATATATTTTAAAAG
* * *
45189364 TTTTATTATTTTTTTAAAG
1 TTTTAATATATTTTAAAAG
45189383 TTT
1 TTT
45189386 GAGGGCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTAATATATTTTAAAAG
Found at i:45199130 original size:28 final size:29
Alignment explanation
Indices: 45199095--45199154 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
45199085 TTAAAACTTT
*
45199095 AAAAATT-AAAAATA-TATAAATTATTTAA
1 AAAAATTAAAAAACATTA-AAATTATTTAA
45199123 AAAAATTAAAAAACATTAAAATTATTTAA
1 AAAAATTAAAAAACATTAAAATTATTTAA
45199152 AAA
1 AAA
45199155 GTATAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.24
29 20 0.69
30 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAAATTAAAAAACATTAAAATTATTTAA
Found at i:45203901 original size:20 final size:20
Alignment explanation
Indices: 45203876--45203922 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
45203866 ATGCCTCCCA
45203876 AGAAAACTAT-ATATAGGATG
1 AGAAAA-TATCATATAGGATG
*
45203896 AGAAAATTTCATATAGGATG
1 AGAAAATATCATATAGGATG
45203916 AGAAAAT
1 AGAAAAT
45203923 TTCCATGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (20 bp):
AGAAAATATCATATAGGATG
Found at i:45203923 original size:20 final size:20
Alignment explanation
Indices: 45203886--45203925 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45203876 AGAAAACTAT
45203886 ATATAGGATGAGAAAATTTC
1 ATATAGGATGAGAAAATTTC
45203906 ATATAGGATGAGAAAATTTC
1 ATATAGGATGAGAAAATTTC
45203926 CATGTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (20 bp):
ATATAGGATGAGAAAATTTC
Found at i:45204540 original size:31 final size:31
Alignment explanation
Indices: 45204505--45204617 Score: 78
Period size: 31 Copynumber: 3.8 Consensus size: 31
45204495 TTAATTTTAG
**
45204505 AAAATCATAAAATTTTAATTAAAAATACATA
1 AAAATCATAAAATTAAAATTAAAAATACATA
* **
45204536 AAAAT-TTCAAAATTAAAATTAAAAATATTTA
1 AAAATCAT-AAAATTAAAATTAAAAATACATA
* *
45204567 AAAATACAT-AAA-TAAAA-CAAAAA-A-ATT
1 AAAAT-CATAAAATTAAAATTAAAAATACATA
*
45204594 AAAATCA-AAATTTTAAAATTAAAA
1 AAAATCATAAA-ATTAAAATTAAAA
45204618 TCAAAATCAA
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
26 4 0.06
27 6 0.09
28 6 0.09
29 9 0.14
30 6 0.09
31 32 0.50
33 1 0.02
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (31 bp):
AAAATCATAAAATTAAAATTAAAAATACATA
Done.