Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 190 of 332
Found at i:63362278 original size:79 final size:79
Alignment explanation
Indices: 63362185--63362378 Score: 239
Period size: 79 Copynumber: 2.4 Consensus size: 79
63362175 CATGTGGTCA
* * * *
63362185 CTAGCATAGATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTT
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGATCTT
63362249 AGCCCGGATATAAT-C
65 AG-CCGGATATAATAC
* * * *
63362264 GTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTA
* * *
63362329 GTCGGTTATAGTCAC
66 GCCGGATATAAT-AC
*
63362344 CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
63362379 CATTCGAATA
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 9 0.09
79 56 0.57
80 33 0.34
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (79 bp):
CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTA
GCCGGATATAATAC
Found at i:63363047 original size:37 final size:38
Alignment explanation
Indices: 63362975--63363058 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
63362965 TGCTTACCTA
63362975 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
63363013 TGGCCGAACATACACATCAAC-TATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
63363050 T--CCGAACAT
1 TGGCCGAACAT
63363059 GCATGTCTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
35 8 0.17
37 17 0.37
38 21 0.46
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:63370284 original size:40 final size:40
Alignment explanation
Indices: 63370228--63370454 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
63370218 ATTACAGTAG
* * * * *
63370228 ATGCCTTTGGGTCTTAGCCCGGATATGGTCACTAGCATAG
1 ATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
* *
63370268 ATGCCTTCGGGACTTAGCGCGGATATAGTCGCTAGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
* * * *
63370308 ATGCTTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
* * * **
63370348 ATGCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCATGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAA
* * *
63370388 ATGCCTTC-GGATCTTAGTCTGGTTATAGTCACCTAGCACAA
1 ATGCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAA
* *
63370429 AAGCCTTCGGGACTTAGCCCGAATAT
1 ATGCCTTCGGGACTTAGCCCGGATAT
63370455 CATTCGAATA
Statistics
Matches: 151, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.02
40 121 0.80
41 24 0.16
42 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA
Found at i:63371101 original size:38 final size:38
Alignment explanation
Indices: 63371050--63371136 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
63371040 TGCTTACCTA
63371050 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
*
63371088 TGGCCGAACATACACATCAAGTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
*
63371126 TGGCCAAACAT
1 TGGCCGAACAT
63371137 GCATGTCTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:63382468 original size:34 final size:34
Alignment explanation
Indices: 63382428--63382497 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
63382418 GAAAGCTCTA
63382428 AACATAGATGATTGTATGGTATGTTGTTAGATCT
1 AACATAGATGATTGTATGGTATGTTGTTAGATCT
63382462 AACATAGATGATTGTATGGTATGTTGTTAGATCT
1 AACATAGATGATTGTATGGTATGTTGTTAGATCT
63382496 AA
1 AA
63382498 TTTCATTCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (34 bp):
AACATAGATGATTGTATGGTATGTTGTTAGATCT
Found at i:63384535 original size:40 final size:41
Alignment explanation
Indices: 63384435--63384545 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 41
63384425 ACTCAAATTC
* * *
63384435 TCGCACACTAAGTGCCAATACATAGCTGAAGCTATTTTAATA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAACTATCTTAATA
*** *
63384477 TATTACACTAAGTGCCATACATAGCCGAAACTATCTTGA-A
1 TCGCACACTAAGTGCCATACATAGCCGAAACTATCTTAATA
*
63384517 TCGCACACTAAGTACCATACATAGCCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAA
63384546 TTGTCATCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 26 0.45
41 19 0.33
42 13 0.22
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (41 bp):
TCGCACACTAAGTGCCATACATAGCCGAAACTATCTTAATA
Found at i:63388355 original size:40 final size:40
Alignment explanation
Indices: 63388300--63388393 Score: 170
Period size: 40 Copynumber: 2.4 Consensus size: 40
63388290 TCTCGCAATG
*
63388300 AGTGCCATACATAGCCAAAGTTATCTCGAAGTGCACACTA
1 AGTGCCATACATAGCCAAAGCTATCTCGAAGTGCACACTA
*
63388340 AGTGCCATACATAGCCAAAGCTATCTCGAATTGCACACTA
1 AGTGCCATACATAGCCAAAGCTATCTCGAAGTGCACACTA
63388380 AGTGCCATACATAG
1 AGTGCCATACATAG
63388394 TCGAATTGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (40 bp):
AGTGCCATACATAGCCAAAGCTATCTCGAAGTGCACACTA
Found at i:63391944 original size:40 final size:40
Alignment explanation
Indices: 63391893--63392087 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
63391883 GGATATAGCT
* * *
63391893 ACTCGCTCAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
63391933 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
*
63391973 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* * * *
63392013 ACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAATA
* * *
63392052 AGTAGCACAAATGCTTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63392088 CATCTGAATT
Statistics
Matches: 139, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 30 0.22
40 107 0.77
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
Found at i:63392078 original size:119 final size:119
Alignment explanation
Indices: 63391867--63392087 Score: 295
Period size: 119 Copynumber: 1.9 Consensus size: 119
63391857 AAACCAAGTA
** * * *
63391867 CCTTCGGGGTTTAGCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCAGTTATAGT
1 CCTTCGGGACTTAGCCGGATATAGATACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAGT
*
63391932 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAATG
* *
63391986 CCTTCGGGACTTAGCCCGGATATA-ATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAG-CCGGATATAGAT-ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATA-T
* * *
63392048 AGTCAGTAGCACAAATGCTTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63392088 CATCTGAATT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 1 0.01
119 59 0.67
120 28 0.32
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCGGATATAGATACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAATG
Found at i:63402359 original size:38 final size:38
Alignment explanation
Indices: 63402315--63402472 Score: 219
Period size: 38 Copynumber: 4.1 Consensus size: 38
63402305 TTTAAACTCA
* * *
63402315 GATATAATACCAGCACTAGGCTTGCGGCATTTAACCCG
1 GATATAATACCAGCACTAAGCCTGCGGGATTTAACCCG
*
63402353 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACTAAGCCTGCGGGATTTAACCCG
*
63402391 GATATATTACCAGCACTAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACTAAGCCTGCGGGATTTAACCCG
* *
63402429 GATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCACTA-AGCCTGCGGG-ATTTAA-CCCG
63402469 GATA
1 GATA
63402473 CAATCTCAGC
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
37 2 0.02
38 93 0.86
39 5 0.05
40 8 0.07
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (38 bp):
GATATAATACCAGCACTAAGCCTGCGGGATTTAACCCG
Found at i:63406080 original size:23 final size:24
Alignment explanation
Indices: 63406039--63406085 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
63406029 TAAGTAGATT
63406039 AGAAAATAAAAGAAGTGAATTAAAA
1 AGAAAATAAAAGAAGTGAA-TAAAA
*
63406064 AGAAAA-AAAAGGA-TGAATAAAA
1 AGAAAATAAAAGAAGTGAATAAAA
63406086 TAAGGGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 6 0.29
25 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (24 bp):
AGAAAATAAAAGAAGTGAATAAAA
Found at i:63407653 original size:27 final size:27
Alignment explanation
Indices: 63407594--63407798 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
63407584 TAAATTGTAC
63407594 AGCACTAAGTGTGCGAGATTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
*
63407622 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * **
63407649 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
63407675 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
63407703 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
63407731 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
63407757 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
63407784 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
63407799 GACTCAATAT
Statistics
Matches: 154, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.16
27 90 0.58
28 39 0.25
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:63411618 original size:47 final size:46
Alignment explanation
Indices: 63411550--63411762 Score: 175
Period size: 46 Copynumber: 4.5 Consensus size: 46
63411540 TCTGTGTGCT
* * * *
63411550 AGTGTAAGACAAGTCTGGGACATGTATTGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGTA-AGCC
*
63411596 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCACGAGATGTAAGCC
* * * *
63411643 AGTGTAAGACATGTCTGGAACATGCATCGGCTACGAGAT-T-TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTAAGCC
* * * * *
63411687 AATGTAGGACCATGTCTGGGACATGGCATCGG-CACAGATATGGGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-GAGAT-GTA-AGCC
63411737 AGTGTAAGACCATGTCATGGGACATG
1 AGTGTAAGA-CATGTC-TGGGACATG
63411763 GCGTCAGCCT
Statistics
Matches: 135, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
44 9 0.07
45 16 0.12
46 47 0.35
47 37 0.27
48 2 0.01
50 16 0.12
51 8 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTAAGCC
Found at i:63411751 original size:50 final size:48
Alignment explanation
Indices: 63411689--63411817 Score: 134
Period size: 50 Copynumber: 2.6 Consensus size: 48
63411679 GATTTGTCAA
* * *
63411689 TGTAGGACCATGTCTGGGACATGGCATCGGCACAGATATGGGAG-AGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGCCACA-AT-TGGGAGAATC-AG
* * ** *
63411739 TGTAAGACCATGTCATGGGACATGGCGTCAGCCTCAATTTTGATAATCAG
1 TGTAAGACCATGTC-TGGGACATGGCATC-GCCACAATTGGGAGAATCAG
63411789 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
63411818 ACATTATACC
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
48 1 0.01
49 13 0.19
50 32 0.48
51 17 0.25
52 4 0.06
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGCCACAATTGGGAGAATCAG
Found at i:63417996 original size:17 final size:17
Alignment explanation
Indices: 63417974--63418006 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
63417964 TTTACTTGCT
63417974 AACAAATTAAACATTTC
1 AACAAATTAAACATTTC
63417991 AACAAATTAAACATTT
1 AACAAATTAAACATTT
63418007 TGATACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (17 bp):
AACAAATTAAACATTTC
Found at i:63420497 original size:15 final size:15
Alignment explanation
Indices: 63420477--63420510 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
63420467 ACTAAGATGA
63420477 TGCCTACCGCAATGT
1 TGCCTACCGCAATGT
63420492 TGCCTACCGCAATGT
1 TGCCTACCGCAATGT
63420507 TGCC
1 TGCC
63420511 ACTCAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.35, G:0.21, T:0.26
Consensus pattern (15 bp):
TGCCTACCGCAATGT
Found at i:63421926 original size:27 final size:27
Alignment explanation
Indices: 63421895--63422129 Score: 238
Period size: 27 Copynumber: 8.7 Consensus size: 27
63421885 TATGAAACAT
* * *
63421895 AAGGGCATAATTGTCATTTTACCATAC
1 AAGGGCATTATGGTCATTTTACCCTAC
* * *
63421922 AAGGGTATTACGATCATTTTACCCTAC
1 AAGGGCATTATGGTCATTTTACCCTAC
* *
63421949 AGGGGCATTATGGTCATTTTACGCTAC
1 AAGGGCATTATGGTCATTTTACCCTAC
*
63421976 AGGGGCATTATGGTCATTTTACCCTAC
1 AAGGGCATTATGGTCATTTTACCCTAC
* *
63422003 AGGGGCATTATGGTCATTTTACCGTAC
1 AAGGGCATTATGGTCATTTTACCCTAC
* * *
63422030 -AGGGCCATTACGGTCATTTTATCCTAT
1 AAGGG-CATTATGGTCATTTTACCCTAC
* * *
63422057 AGGGGCATTACGGTTATTTTACCCTAC
1 AAGGGCATTATGGTCATTTTACCCTAC
* * * * *
63422084 AGGGGCATTACGATCATTTTACCTTAT
1 AAGGGCATTATGGTCATTTTACCCTAC
* *
63422111 AGGGGCATTATGATCATTT
1 AAGGGCATTATGGTCATTT
63422130 ACCTATTTTG
Statistics
Matches: 179, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 173 0.97
28 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (27 bp):
AAGGGCATTATGGTCATTTTACCCTAC
Found at i:63421993 original size:54 final size:54
Alignment explanation
Indices: 63421897--63422129 Score: 297
Period size: 54 Copynumber: 4.3 Consensus size: 54
63421887 TGAAACATAA
* * * *
63421897 GGGCATAATTGTCATTTTACCATACAAGGGTATTACGATCATTTTACCCTACAG
1 GGGCATTATGGTCATTTTACCATACAGGGGCATTACGATCATTTTACCCTACAG
* *
63421951 GGGCATTATGGTCATTTTACGC-TACAGGGGCATTATGGTCATTTTACCCTACAG
1 GGGCATTATGGTCATTTTAC-CATACAGGGGCATTACGATCATTTTACCCTACAG
* * * * *
63422005 GGGCATTATGGTCATTTTACCGTACAGGGCCATTACGGTCATTTTATCCTATAG
1 GGGCATTATGGTCATTTTACCATACAGGGGCATTACGATCATTTTACCCTACAG
* * * * *
63422059 GGGCATTACGGTTATTTTACCCTACAGGGGCATTACGATCATTTTACCTTATAG
1 GGGCATTATGGTCATTTTACCATACAGGGGCATTACGATCATTTTACCCTACAG
*
63422113 GGGCATTATGATCATTT
1 GGGCATTATGGTCATTT
63422130 ACCTATTTTG
Statistics
Matches: 157, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 155 0.99
55 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (54 bp):
GGGCATTATGGTCATTTTACCATACAGGGGCATTACGATCATTTTACCCTACAG
Found at i:63421995 original size:81 final size:81
Alignment explanation
Indices: 63421897--63422129 Score: 306
Period size: 81 Copynumber: 2.9 Consensus size: 81
63421887 TGAAACATAA
* * * * *
63421897 GGGCATAATTGTCATTTTACCATACAAGGGTATTACGATCATTTTACCCTACAGGGGCATTATGG
1 GGGCATTATGGTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGG
63421962 TCATTTTA-CGCTACAG
66 TCATTTTATC-CTACAG
* * * * *
63421978 GGGCATTATGGTCATTTTACCCTACAGGGGCATTATGGTCATTTTACCGTACAGGGCCATTACGG
1 GGGCATTATGGTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGG
*
63422043 TCATTTTATCCTATAG
66 TCATTTTATCCTACAG
* * * * *
63422059 GGGCATTACGGTTATTTTACCCTACAGGGGCATTACGATCATTTTACCTTATAGGGGCATTATGA
1 GGGCATTATGGTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGG
63422124 TCATTT
66 TCATTT
63422130 ACCTATTTTG
Statistics
Matches: 131, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 130 0.99
82 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (81 bp):
GGGCATTATGGTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGG
TCATTTTATCCTACAG
Found at i:63424933 original size:26 final size:27
Alignment explanation
Indices: 63424904--63424956 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
63424894 AAAATCATCT
63424904 CTTTCGAAAACCAAGA-TTT-AGAAAAA
1 CTTTCGAAAACCAA-ATTTTGAGAAAAA
*
63424930 CTTTTGAAAACCAAATTTTGAGAAAAA
1 CTTTCGAAAACCAAATTTTGAGAAAAA
63424957 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (27 bp):
CTTTCGAAAACCAAATTTTGAGAAAAA
Found at i:63424965 original size:26 final size:26
Alignment explanation
Indices: 63424910--63424965 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
63424900 ATCTCTTTCG
**
63424910 AAAACCAAGATTTAGAAAAACTTTTG
1 AAAACCAAGATTTAGAAAAACTTTAA
63424936 AAAACCAA-ATTTTGAGAAAAA-TTTAA
1 AAAACCAAGA-TTT-AGAAAAACTTTAA
63424962 AAAA
1 AAAA
63424966 AAAACCATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 18 0.69
27 7 0.27
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (26 bp):
AAAACCAAGATTTAGAAAAACTTTAA
Found at i:63440831 original size:46 final size:46
Alignment explanation
Indices: 63440774--63440907 Score: 171
Period size: 46 Copynumber: 2.9 Consensus size: 46
63440764 GGGATATTTG
* *
63440774 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-ACGA
* *** * *
63440821 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAACGA
63440867 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63440908 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 36 0.50
47 36 0.50
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAACGA
Found at i:63440891 original size:47 final size:47
Alignment explanation
Indices: 63440774--63440901 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 47
63440764 GGGATATTTG
* ** *
63440774 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACAGATGGATACGA
* * * *
63440821 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACAGATGGATACGA
63440867 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
63440902 TTATGGGCGG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 33 0.48
47 36 0.52
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACAGATGGATACGA
Found at i:63443848 original size:15 final size:15
Alignment explanation
Indices: 63443828--63443896 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
63443818 GTATCTTGGG
63443828 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
63443843 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
63443858 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
63443873 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
63443888 TTTCTTTAT
1 TTTCTTTAT
63443897 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:63443897 original size:30 final size:30
Alignment explanation
Indices: 63443819--63443906 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
63443809 CATAGTATCG
* * * *
63443819 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
63443849 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
63443879 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
63443907 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:63446345 original size:46 final size:46
Alignment explanation
Indices: 63446292--63446467 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
63446282 TATTTGGGCA
63446292 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*** * * * *
63446338 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* * *
63446385 TCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
63446431 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63446468 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 72 0.67
47 36 0.33
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:63446447 original size:93 final size:93
Alignment explanation
Indices: 63446288--63446459 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
63446278 GGGATATTTG
* * *
63446288 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAG
63446353 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
63446381 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAG
63446446 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
63446460 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:63449859 original size:47 final size:47
Alignment explanation
Indices: 63449781--63450093 Score: 473
Period size: 47 Copynumber: 6.6 Consensus size: 47
63449771 CCCTTCGAGA
* * * * * * *
63449781 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63449828 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63449875 CTTATCATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63449922 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63449969 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63450018 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63450065 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
63450094 TATTCAAATA
Statistics
Matches: 243, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 179 0.74
49 64 0.26
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63450019 original size:96 final size:96
Alignment explanation
Indices: 63449781--63450093 Score: 517
Period size: 96 Copynumber: 3.3 Consensus size: 96
63449771 CCCTTCGAGA
* * * * * *
63449781 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
63449844 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
63449875 CTTAT--CATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
63449938 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
63449969 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
63450034 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
63450065 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
63450094 TATTCAAATA
Statistics
Matches: 203, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
92 3 0.01
93 1 0.00
94 84 0.41
96 115 0.57
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63450037 original size:143 final size:141
Alignment explanation
Indices: 63449781--63450093 Score: 473
Period size: 143 Copynumber: 2.2 Consensus size: 141
63449771 CCCTTCGAGA
* * * * * * *
63449781 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
63449846 TTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
63449911 GGCTATTAGGC
131 GGCCATTAGGC
* *
63449922 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
* *
63449987 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
63450052 TCGGCCATTAGGC
129 TCGGCCATTAGGC
63450065 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
63450094 TATTCAAATA
Statistics
Matches: 155, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
141 46 0.30
143 90 0.58
145 19 0.12
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:63465464 original size:15 final size:15
Alignment explanation
Indices: 63465444--63465474 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63465434 AAATATGAAA
63465444 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
63465459 GATATGTTTTGTATT
1 GATATGTTTTGGATT
63465474 G
1 G
63465475 CAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:63466086 original size:45 final size:45
Alignment explanation
Indices: 63466025--63466206 Score: 231
Period size: 45 Copynumber: 4.0 Consensus size: 45
63466015 TAAGATTCTG
* *
63466025 ATATGTGCTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * *
63466070 ATATGTATTTTCGTGTAAGACCACATCTGGGAAGTTGGTATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
*
63466115 ATATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * * * *
63466160 ACATGTGGTTACGTGTAAGACCATGTCTAGGACAG-TGACATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT
63466205 AT
1 AT
63466207 GAGATAGCAT
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
45 116 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:63471832 original size:44 final size:45
Alignment explanation
Indices: 63471756--63471842 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 45
63471746 CTGAAGCCTG
*
63471756 ATATTATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 ATATTATCTCACCGGCATTAAAGCCTGCTAGG-CCGAAGCCCGATA
* * *
63471802 ATATTAT-TCACCTGC-TTAAAGCTTGCTAGGCCGAGGCCCGA
1 ATATTATCTCACCGGCATTAAAGCCTGCTAGGCCGAAGCCCGA
63471843 ATATCACATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 10 0.27
44 13 0.35
45 7 0.19
46 7 0.19
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (45 bp):
ATATTATCTCACCGGCATTAAAGCCTGCTAGGCCGAAGCCCGATA
Found at i:63477830 original size:16 final size:17
Alignment explanation
Indices: 63477809--63477840 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
63477799 CCACAATTTC
63477809 CAAATTAGTCC-TTTTA
1 CAAATTAGTCCATTTTA
63477825 CAAATTAGTCCATTTT
1 CAAATTAGTCCATTTT
63477841 CATAACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (17 bp):
CAAATTAGTCCATTTTA
Found at i:63483589 original size:16 final size:15
Alignment explanation
Indices: 63483565--63483594 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
63483555 AACTGTTCTA
63483565 TTACAAATTTCACTC
1 TTACAAATTTCACTC
63483580 TTACATAATTTCACT
1 TTACA-AATTTCACT
63483595 TACTCCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:63483918 original size:50 final size:50
Alignment explanation
Indices: 63483792--63484084 Score: 207
Period size: 50 Copynumber: 5.8 Consensus size: 50
63483782 GTCACCGAAG
* * * * *
63483792 CTATCTGGTACGCATAGTAGCCTGCACTTCGTATTACACATGCGACC-AA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * ** *
63483841 CAATCCGGTACATGTAGTAGCTTGCACTTAGTACTACACATGTGACCTAA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * *
63483891 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACATATGTGA-TTGAA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * * * * **
63483941 GTTGTCGGGTACGCATAGTCGCTTGCACTTAGTACTACACATACGACCTAA
1 -CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * ** * *
63483992 CTGTCT-AGTACACATATTAGCCTATACTTAGGACTACACACGTGACCTAAAA
1 CTATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AA
* * * *
63484044 CCATCTTA-AGCACATAGTATCCTGCACATAGTACTACACAT
1 CTATCTGATA-CACATAGTAGCCTGCACTTAGTACTACACAT
63484085 TTGTTCTCAC
Statistics
Matches: 185, Mismatches: 50, Indels: 15
0.74 0.20 0.06
Matches are distributed among these distances:
49 39 0.21
50 77 0.42
51 37 0.20
52 31 0.17
53 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:63486030 original size:6 final size:6
Alignment explanation
Indices: 63486019--63486120 Score: 104
Period size: 6 Copynumber: 16.8 Consensus size: 6
63486009 AACCAAAATG
*
63486019 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
63486067 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
63486116 AGAAT
1 AGAAT
63486121 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
5 6 0.07
6 68 0.84
7 5 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:63486034 original size:30 final size:29
Alignment explanation
Indices: 63485998--63486120 Score: 140
Period size: 30 Copynumber: 4.1 Consensus size: 29
63485988 AAGAAACATT
* * *
63485998 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
63486028 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
63486058 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*
63486088 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
63486119 AT
1 AT
63486121 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
29 1 0.01
30 55 0.68
31 25 0.31
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:63486275 original size:27 final size:26
Alignment explanation
Indices: 63486238--63486303 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
63486228 AGCATGGCTG
*
63486238 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
63486264 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
*
63486291 CCAAAATCAGATA
1 CCAGAA-CAGATA
63486304 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:63486524 original size:22 final size:22
Alignment explanation
Indices: 63486476--63486534 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
63486466 GTAAATATGT
*
63486476 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
63486498 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
63486520 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
63486535 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:63486667 original size:27 final size:26
Alignment explanation
Indices: 63486622--63486704 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
63486612 TCGATCGGTC
* * *
63486622 AACAGATATTGTGATAGAGTCACTAG
1 AACAGATATTGTGACAGAGCCACCAG
* *
63486648 ATACATATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAG
* * *
63486675 AACAGATATTTATGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAG
63486702 AAC
1 AAC
63486705 GCTTCCTCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.15
27 40 0.85
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:63487099 original size:27 final size:27
Alignment explanation
Indices: 63486923--63487091 Score: 223
Period size: 27 Copynumber: 6.3 Consensus size: 27
63486913 CCCACACAAA
* *
63486923 GGTATCTCGGTAATTCTACCCTAGAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
63486950 GGTAATTCGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
63486977 GGTATTTCGATAATTCTACCTTAC-GAG
1 GGTATTTCGGTAATTCTACCCTACAG-G
*
63487004 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
63487031 GGTATTTTAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
63487058 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
63487085 GGTATTT
1 GGTATTT
63487092 TAGTAATTTC
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 121 0.99
28 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:63487142 original size:27 final size:27
Alignment explanation
Indices: 63487108--63487540 Score: 465
Period size: 27 Copynumber: 16.0 Consensus size: 27
63487098 TTTCACAATT
* *
63487108 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* * * * *
63487135 AAGGGTAAAACGATAATTTTGTAAACC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
63487162 GAGGGTAAACCAGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
63487189 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
63487216 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* **
63487243 AAGGGTAAAATAGTAATTCTATAAA-C
1 GAGGGTAAAACGGTAATTCTATAAATC
* * *
63487269 TGAAGGTAAAACGATAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
* *
63487297 GAGCGTAAAATGGTAATTCTATAAA-C
1 GAGGGTAAAACGGTAATTCTATAAATC
*
63487323 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
* ** * * *
63487351 AAGGGTAAAATAGTAATTTTACAAATT
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
63487378 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
** *
63487405 GAGGGTAAAATAGTAATTCTATAAATT
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
63487432 GAGGGTAAAATGGTAATTCTATAAACC
1 GAGGGTAAAACGGTAATTCTATAAATC
* * *
63487459 GAGGATAAAACGGTAATTTTAAAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
63487486 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
*
63487513 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
63487540 G
1 G
63487541 GGAGTACTTT
Statistics
Matches: 335, Mismatches: 67, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.01
27 331 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTATAAATC
Found at i:63487538 original size:108 final size:108
Alignment explanation
Indices: 63487104--63487538 Score: 552
Period size: 108 Copynumber: 4.0 Consensus size: 108
63487094 GTAATTTCAC
* *
63487104 AATTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC-GATAATTTTGTAAACCGAGGGT
1 AATTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAG-TAATTTTATAAATCGAGGGT
* * * *
63487168 -AAACCAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACA
65 AAAACGA-TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
* * * *
63487212 AATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAA-CTGAAGGT
1 AATTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTTATAAATC-GAGGGT
* *
63487276 AAAACGATAATTCTGTAAATCGAGCGTAAAATGGTAATTCTATA
65 AAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
* * * * *
63487320 AACTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATAGTAATTTTACAAATTGAGGGTA
1 AATTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTA
* * **
63487385 AAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATA
66 AAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
** * * * * * *
63487428 AATTGAGGGTAAAATGGTAATTCTATAAACCGAGGATAAAACGGTAATTTTAAAAATCGAGGGTA
1 AATTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTA
*
63487493 AAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
66 AAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
63487536 AAT
1 AAT
63487539 CGGGAGTACT
Statistics
Matches: 286, Mismatches: 37, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
107 1 0.00
108 279 0.98
109 6 0.02
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (108 bp):
AATTGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTA
AAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
Found at i:63488901 original size:15 final size:15
Alignment explanation
Indices: 63488881--63488912 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
63488871 TTTATTAATG
63488881 TACAAAAATGTGAGT
1 TACAAAAATGTGAGT
63488896 TACAAAAATGTGAGT
1 TACAAAAATGTGAGT
63488911 TA
1 TA
63488913 ACCATGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
TACAAAAATGTGAGT
Found at i:63489484 original size:18 final size:18
Alignment explanation
Indices: 63489461--63489496 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
63489451 AATGAGACTT
63489461 AATTTTGTCTTGAAGGAA
1 AATTTTGTCTTGAAGGAA
63489479 AATTTTGTCTTGAAGGAA
1 AATTTTGTCTTGAAGGAA
63489497 GTAGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (18 bp):
AATTTTGTCTTGAAGGAA
Found at i:63496042 original size:47 final size:45
Alignment explanation
Indices: 63495978--63496107 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 45
63495968 TACGTCTCGA
* *
63495978 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTTTCAA-T
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTC--AT-AAGT
* * *
63496025 -GCCAATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAATGT
1 GGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATAA-GT
*
63496072 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCA
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCA
63496108 TACAAATAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.03
46 19 0.28
47 27 0.39
48 21 0.30
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTCATAAGT
Found at i:63498828 original size:94 final size:94
Alignment explanation
Indices: 63498627--63498933 Score: 243
Period size: 94 Copynumber: 3.3 Consensus size: 94
63498617 AGAACTGGTA
* * * *
63498627 TAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGGGCTAGTGTAAGACGTGTCTGGTAC
1 TAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGGGCCAGTGTAAGACATGTCTGGCAC
**
63498692 ATGCATCAGACGCATCATGATAGCCCGTG
66 ATGCATCAGACGCATCATGATAGCCAATG
* * * *
63498721 TAAGACCACGTCTGGGACATGGCATC-GACATAGAGGTGAGTGCCAGTGTAAGACATGTTTGGGC
1 TAAGACCATGTCTGGGACATGGCATCAG-CATAGAGATGAGGGCCAGTGTAAGACATGTCT-GGC
* * *
63498785 A-ATGCATC-GACCTCGATGATGTTAGCCAATG
64 ACATGCATCAGA-CGC-ATCATGATAGCCAATG
* ** * ** * *
63498816 TAAGA-CGTGTCTGGGACAT-GCATTGGC-TA-AGTTTTGTGCTAGTGTAAGACATGTCTTGG-A
1 TAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGGGCCAGTGTAAGACATGTC-TGGCA
* * * * *
63498876 CATGCATCAGCACGTATACACGAGAGCTAGTG
65 CATGCATCAG-ACGCAT-CATGATAGCCAATG
* *
63498908 TAAGACCATATCTGGGATATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
63498934 GGCCTCAATG
Statistics
Matches: 168, Mismatches: 33, Indels: 24
0.75 0.15 0.11
Matches are distributed among these distances:
90 1 0.01
91 32 0.19
92 18 0.11
93 20 0.12
94 77 0.46
95 20 0.12
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
TAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGGGCCAGTGTAAGACATGTCTGGCAC
ATGCATCAGACGCATCATGATAGCCAATG
Found at i:63498837 original size:47 final size:46
Alignment explanation
Indices: 63498671--63498977 Score: 132
Period size: 47 Copynumber: 6.5 Consensus size: 46
63498661 GATGAGGGCT
* *
63498671 AGTGTAAGACGTGTCTGGTACATGCATCAGACGCATC-ATGA--TAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GAC-C-TCGATGATGTAGCC
* * * *
63498717 CGTGTAAGACCACGTCTGGGACATGGCATCGACATAGAGGTGA-GT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGA--TGATGTAGCC
*
63498765 AGTGTAAGACATGTTTGGG-CAATGCATCGACCTCGATGATGTTAGCC
1 AGTGTAAGACATGTCTGGGAC-ATGCATCGACCTCGATGATG-TAGCC
* * * * * ** *
63498812 AATGTAAGACGTGTCTGGGACATGCATTG-GCT-AAGTTTTGT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-TGATGTAGCC
* * * * * * *
63498856 AGTGTAAGACATGTCTTGGACATGCATC-AGCACGTATACACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCG-AT-GATG-TAGCC
* * * *
63498904 AGTGTAAGACCATATCTGGGATATGGCATCGGCCTCAATGGA-GATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAT-GATG-TAGCC
*
63498953 AGTGTAAGACCATATCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
63498978 GCAGTGGCAA
Statistics
Matches: 198, Mismatches: 42, Indels: 40
0.71 0.15 0.14
Matches are distributed among these distances:
44 31 0.16
45 5 0.03
46 29 0.15
47 50 0.25
48 33 0.17
49 40 0.20
50 8 0.04
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCGATGATGTAGCC
Found at i:63499276 original size:37 final size:37
Alignment explanation
Indices: 63499233--63499307 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
63499223 GTTGATGTTG
*
63499233 TGTATATATTTATGTGCAACTTAGTAAGCTTTGTGCT
1 TGTATATATTTATGTGCAACTTAGTAAGCTTTATGCT
63499270 TGTATATATTTATGTGCAACTTAGTAAGCTTTATGCT
1 TGTATATATTTATGTGCAACTTAGTAAGCTTTATGCT
63499307 T
1 T
63499308 ACTCTCTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (37 bp):
TGTATATATTTATGTGCAACTTAGTAAGCTTTATGCT
Found at i:63499303 original size:21 final size:21
Alignment explanation
Indices: 63499241--63499304 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
63499231 TGTGTATATA
63499241 TTTATGTGCAACTTAGTAAGC
1 TTTATGTGCAACTTAGTAAGC
**
63499262 -TT-TGTG---CTT-GTATATA
1 TTTATGTGCAACTTAGTA-AGC
63499278 TTTATGTGCAACTTAGTAAGC
1 TTTATGTGCAACTTAGTAAGC
63499299 TTTATG
1 TTTATG
63499305 CTTACTCTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
15 3 0.09
16 4 0.12
17 2 0.06
18 4 0.12
19 4 0.12
20 2 0.06
21 10 0.31
22 3 0.09
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (21 bp):
TTTATGTGCAACTTAGTAAGC
Found at i:63500372 original size:29 final size:29
Alignment explanation
Indices: 63500231--63500372 Score: 232
Period size: 29 Copynumber: 4.9 Consensus size: 29
63500221 CATACATGCT
* *
63500231 TATGGCCCATTAGGCCC-AATCTCATTCA
1 TATGGCCCATTAGGCCCAAATCACATTTA
*
63500259 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCATTAGGCCCAAATCACATTTA
*
63500288 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCATTAGGCCCAAATCACATTTA
*
63500317 TATGGCCCATTAGGACCAAATCACATTTA
1 TATGGCCCATTAGGCCCAAATCACATTTA
63500346 TATGGCCCATTAGGCCCAAATCACATT
1 TATGGCCCATTAGGCCCAAATCACATT
63500373 CACAGTCATG
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 17 0.16
29 90 0.84
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTTA
Found at i:63502031 original size:47 final size:47
Alignment explanation
Indices: 63501917--63502086 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 47
63501907 GCCCCTAAGT
* * * *
63501917 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
63501963 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
63502010 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
63502055 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
63502087 TCAACCATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 27 0.26
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:63502086 original size:92 final size:93
Alignment explanation
Indices: 63501917--63502086 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
63501907 GCCCCTAAGT
* *
63501917 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
63501982 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
63502010 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
63502074 CGAGTTCGGATGC
66 CGAGTTCGGATGC
63502087 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:63502540 original size:30 final size:30
Alignment explanation
Indices: 63502506--63502565 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
63502496 ATTTAATACG
63502506 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
63502536 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
63502566 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:63509565 original size:47 final size:49
Alignment explanation
Indices: 63509448--63509622 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 49
63509438 AACCCGCCCC
* * * *
63509448 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
63509493 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
63509541 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
63509586 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
63509623 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 32 0.29
46 30 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:63509611 original size:93 final size:92
Alignment explanation
Indices: 63509453--63509622 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
63509443 GCCCCTAAGT
*
63509453 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
63509518 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
63509545 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
63509610 CGAGTTCGGATGC
65 CGAGTTCGGATGC
63509623 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:63518939 original size:47 final size:47
Alignment explanation
Indices: 63518888--63519392 Score: 820
Period size: 47 Copynumber: 10.7 Consensus size: 47
63518878 TTAGGATTCT
* * *
63518888 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
63518935 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
63518982 ATGTGATGAATGTGAAAGTGTATATATATGGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGT-GATAAGGCCTAATGGCCG
63519030 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
63519079 A--TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63519123 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
63519170 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63519217 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
63519264 ATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
63519311 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
63519358 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
63519393 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 19, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
44 5 0.01
45 22 0.05
46 40 0.09
47 300 0.69
48 38 0.09
49 19 0.04
50 8 0.02
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:63519560 original size:37 final size:37
Alignment explanation
Indices: 63519510--63519654 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
63519500 CCGAGCTCTA
*
63519510 AAGACTCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
63519547 AAGACCCGATGACTACGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
63519584 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
63519621 AAGACCCGATAACTTCGTGTGGAGATTACGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCG
63519655 AGCTAAAGTC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:63520974 original size:40 final size:40
Alignment explanation
Indices: 63520915--63521266 Score: 456
Period size: 40 Copynumber: 8.8 Consensus size: 40
63520905 GAGAATTGAG
* *
63520915 AGTGATATATCCGGGCTAAGTCCCGAATAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
63520955 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
63520995 AGTGATATATCCGAGA-TAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCG-GACTAAGTCCCGAAGAGCATTCGTGCT
* **
63521035 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
63521075 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
63521115 AGTGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
63521155 AGTGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* **
63521195 AGAGATATATCCGTG-CTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCG-GACTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
63521235 GGTGTTATATCCGGGCTAGGTCCTGAAGAGCA
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCA
63521267 ATCATGCTGG
Statistics
Matches: 274, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
39 3 0.01
40 268 0.98
41 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:63521261 original size:80 final size:80
Alignment explanation
Indices: 63520915--63521266 Score: 508
Period size: 80 Copynumber: 4.4 Consensus size: 80
63520905 GAGAATTGAG
*
63520915 AGTGATATATCCGGGCTAAGTCCCGAATAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
63520980 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * * *
63520995 AGTGATATATCCGAGATAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTTCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
63521060 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* *
63521075 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCTG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
63521140 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * * * * * ***
63521155 AGTGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCTAGAGATATATCCGTG-CTAAACCCC
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTCC
63521219 GAAGAGCATTCGTGCT
65 GAAGAGCATTCGTGCT
* * * *
63521235 GGTGTTATATCCGGGCTAGGTCCTGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
63521267 ATCATGCTGG
Statistics
Matches: 245, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
80 244 1.00
81 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
AAGAGCATTCGTGCT
Found at i:63525164 original size:47 final size:47
Alignment explanation
Indices: 63525113--63525572 Score: 787
Period size: 47 Copynumber: 9.7 Consensus size: 47
63525103 TTAGGATTCT
* * *
63525113 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
63525160 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63525207 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
63525256 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63525303 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63525350 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63525397 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
63525444 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
63525491 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
63525538 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
63525573 TCCCGAAGGG
Statistics
Matches: 397, Mismatches: 13, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 349 0.88
49 47 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:63525740 original size:37 final size:37
Alignment explanation
Indices: 63525691--63525834 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
63525681 CCGAGCTCTA
63525691 AAGA-CCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
63525727 AAGACCCGATGACTACGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
63525764 AAGACCCGATGACTACGTGTGGAGATTTTATCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
63525801 AAGACCCGATAACTTCGTGTGGAGATTACGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCG
63525835 AGCTAAAGGT
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 4 0.04
37 94 0.96
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:63530024 original size:17 final size:17
Alignment explanation
Indices: 63530004--63530041 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
63529994 TTTTCTTTTA
63530004 TTTTTAAGATTCATTCG
1 TTTTTAAGATTCATTCG
*
63530021 TTTTTAAGATTCATTTG
1 TTTTTAAGATTCATTCG
63530038 TTTT
1 TTTT
63530042 CCTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTTTAAGATTCATTCG
Found at i:63533630 original size:49 final size:49
Alignment explanation
Indices: 63533557--63533689 Score: 137
Period size: 50 Copynumber: 2.7 Consensus size: 49
63533547 GGGGTAAGTT
* *
63533557 GCCGATGCCATTTCCCGGACATGGTCTTACACTG-GCTAT-CATCA-TCGA
1 GCCGATGCCATCTCCCAGACATGGTCTTACACTGTGCT-TGCAT-ATTCGA
* * * * * *
63533605 GCCCGATGCCATGTCCCAAACATGGTCATACACTAGTTCTTGCATATTTGT
1 G-CCGATGCCATCTCCCAGACATGGTCTTACACT-GTGCTTGCATATTCGA
63533656 GCCGATGCCATCTCCCAGACATGGTCTTACACTG
1 GCCGATGCCATCTCCCAGACATGGTCTTACACTG
63533690 ACACATCTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
48 1 0.01
49 29 0.41
50 32 0.46
51 8 0.11
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATCTCCCAGACATGGTCTTACACTGTGCTTGCATATTCGA
Found at i:63533745 original size:46 final size:45
Alignment explanation
Indices: 63533669--63533778 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 45
63533659 GATGCCATCT
*
63533669 CCCAGACATGGTCTTACACTGACACATCTCATA-GCCGATGCAT-AA
1 CCCAGACAT-GTCTTACACTGACACATCTCA-AGGCCAATGCATGAA
* ** *
63533714 CCCAGACATGTCTTACACTGGCTTATGTCTCAAGGCCAATGCATGTA
1 CCCAGACATGTCTTACACTGAC--ACATCTCAAGGCCAATGCATGAA
63533761 -CCAGACATGTCTTACACT
1 CCCAGACATGTCTTACACT
63533779 AGCACTTGTC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
44 12 0.21
45 10 0.18
46 33 0.59
47 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (45 bp):
CCCAGACATGTCTTACACTGACACATCTCAAGGCCAATGCATGAA
Found at i:63533789 original size:46 final size:45
Alignment explanation
Indices: 63533715--63533877 Score: 127
Period size: 46 Copynumber: 3.5 Consensus size: 45
63533705 GATGCATAAC
* *
63533715 CCAGACATGTCTTACACTGGC-TTATGTCTCAAGGCCAATGCATGT
1 CCAGACATGTCTTACACTAGCACT-TGTCTCAAGGCCAATGCATGT
* * *
63533760 ACCAGACATGTCTTACACTAGCACTTGTCTCAATGCCGATTCCATGT
1 -CCAGACATGTCTTACACTAGCACTTGTCTCAAGGCC-AATGCATGT
* * * * *
63533807 CCTAGAAATGGTCTTACACTGGCTC-TG-AT-AATGTGGCCGATGCATGT
1 CC-AGACAT-GTCTTACACTAGCACTTGTCTCAA---GGCCAATGCATGT
63533854 CCCAGACATGTCTTACACTAGCAC
1 -CCAGACATGTCTTACACTAGCAC
63533878 ACAAATAACC
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
45 2 0.02
46 47 0.51
47 26 0.28
48 18 0.19
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (45 bp):
CCAGACATGTCTTACACTAGCACTTGTCTCAAGGCCAATGCATGT
Found at i:63535344 original size:48 final size:48
Alignment explanation
Indices: 63535286--63535421 Score: 134
Period size: 48 Copynumber: 2.8 Consensus size: 48
63535276 CATATGGTAG
* ** * *
63535286 GATGCTAATGCAATATCCCGGATATGGTCTTACATGGGATCA-CGTATC
1 GATGCCAATGCAATATCCCAAACATGGTCTTACATGGGATCATAG-ATC
* *
63535334 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCATAGATC
1 GATGCCAATGCAATATCCCAAACATGGTCTTACATGGGATCATAGATC
* * *
63535382 GATGCCAA-GTCCATGT-CTAAGACATGGTCTTACATGGGAT
1 GATGCCAATG-CAATATCCCAA-ACATGGTCTTACATGGGAT
63535422 TGTATCATAG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
47 4 0.05
48 72 0.94
49 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCAATATCCCAAACATGGTCTTACATGGGATCATAGATC
Found at i:63538393 original size:40 final size:40
Alignment explanation
Indices: 63538194--63538379 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
63538184 TTGAATGATG
* * * * *
63538194 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
63538234 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
63538274 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
63538314 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
63538355 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
63538380 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63540942 original size:41 final size:41
Alignment explanation
Indices: 63540896--63540978 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
63540886 ATAGTGATTA
63540896 ACCATTCCATACCAAATGATTATAACATTATGCTCAAACAT
1 ACCATTCCATACCAAATGATTATAACATTATGCTCAAACAT
63540937 ACCATTCCATACCAAATGATTATAACATTATGCTCAAACAT
1 ACCATTCCATACCAAATGATTATAACATTATGCTCAAACAT
63540978 A
1 A
63540979 TATAAGCCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (41 bp):
ACCATTCCATACCAAATGATTATAACATTATGCTCAAACAT
Found at i:63541612 original size:37 final size:37
Alignment explanation
Indices: 63541562--63541640 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
63541552 TTATTACGAA
* *
63541562 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
63541599 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
63541636 GTCTT
1 GTCTT
63541641 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:63541837 original size:47 final size:47
Alignment explanation
Indices: 63541759--63542154 Score: 639
Period size: 47 Copynumber: 8.4 Consensus size: 47
63541749 CCCTTCGGGA
* * * * * * *
63541759 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63541806 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63541853 CTTATCACATATATACACTTTCATATTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACA-TTCATCACATCGGCCATTAGGC
* *
63541901 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63541948 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63541995 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63542042 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63542089 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63542136 CTTATCACATATATACACT
1 CTTATCACATATATACACT
63542155 GTCTTGGCTG
Statistics
Matches: 328, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 283 0.86
48 45 0.14
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63545752 original size:40 final size:40
Alignment explanation
Indices: 63545695--63545916 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
63545685 CCAGCATGAT
* *
63545695 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
63545735 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
63545775 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
63545814 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
63545855 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
63545895 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
63545917 CATCATTCGA
Statistics
Matches: 157, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 41 0.26
40 96 0.61
41 20 0.13
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:63545902 original size:119 final size:120
Alignment explanation
Indices: 63545682--63545916 Score: 289
Period size: 119 Copynumber: 2.0 Consensus size: 120
63545672 CGAATACACG
* * * *
63545682 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAA
* *
63545747 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACA
* * * *
63545801 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGA
* * **
63545865 TCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
65 ACTTAGCCCGGATA-CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCCCGGA
63545917 CATCATTCGA
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
119 58 0.59
120 35 0.36
121 5 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAA
CTTAGCCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACA
Found at i:63546263 original size:29 final size:29
Alignment explanation
Indices: 63546224--63546302 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
63546214 CTTAATAATC
*
63546224 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
63546254 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
63546283 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
63546303 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:63546345 original size:43 final size:43
Alignment explanation
Indices: 63546284--63546386 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
63546274 TGCATTTCAA
63546284 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
63546327 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
63546370 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
63546387 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:63547175 original size:17 final size:17
Alignment explanation
Indices: 63547153--63547186 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
63547143 ATTAGTCAAA
63547153 GTCTCCCATGTTACAGG
1 GTCTCCCATGTTACAGG
63547170 GTCTCCCATGTTACAGG
1 GTCTCCCATGTTACAGG
63547187 ATGACTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (17 bp):
GTCTCCCATGTTACAGG
Found at i:63548316 original size:37 final size:37
Alignment explanation
Indices: 63548266--63548344 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
63548256 TTATTACGAA
* *
63548266 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
63548303 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
63548340 GTCTT
1 GTCTT
63548345 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:63548541 original size:47 final size:47
Alignment explanation
Indices: 63548463--63548860 Score: 643
Period size: 47 Copynumber: 8.4 Consensus size: 47
63548453 CCCTTCGGGA
* * * * * * *
63548463 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63548510 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63548557 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63548604 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63548651 CTTATCACATATATACACTTTCACATTCATCCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCAT-CACATCGGCCATTAGGC
63548699 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63548746 CTTATCACACATTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63548794 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63548841 CTTATCACATATATAACACT
1 CTTATCACATATAT-ACACT
63548861 GTCTTGGCTG
Statistics
Matches: 330, Mismatches: 18, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
47 232 0.70
48 98 0.30
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63548736 original size:95 final size:94
Alignment explanation
Indices: 63548463--63548860 Score: 643
Period size: 95 Copynumber: 4.2 Consensus size: 94
63548453 CCCTTCGGGA
* * * * * * * * *
63548463 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
63548528 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
63548557 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
63548622 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
63548651 CTTATCACATATATACACTTTCACATTCATCCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTATCACATATATACACTTTCACATTCAT-CACATCGGCCATTAGGCCTTATCACATATATACA
63548716 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
63548746 CTTATCACACATTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
63548811 CTTTCACATTCATCACATCGGCTATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
63548841 CTTATCACATATATAACACT
1 CTTATCACATATAT-ACACT
63548861 GTCTTGGCTG
Statistics
Matches: 283, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
94 116 0.41
95 148 0.52
96 19 0.07
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:63553500 original size:40 final size:40
Alignment explanation
Indices: 63553456--63553611 Score: 183
Period size: 40 Copynumber: 3.9 Consensus size: 40
63553446 GGACTAAGAT
*
63553456 CCGAAGGCATTTGTACGAGATACTAAATCTGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTACTAAATCTGGGTTAAGTC
* * *
63553496 CCGAAGTCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTACGAGTTACTAAATCTGGGTTAAGTC
* * * *
63553536 TCGAAGGCATTTGTGCGAGTTACTATAATC-GGGCTATGTC
1 CCGAAGGCATTTGTACGAGTTACTA-AATCTGGGTTAAGTC
* *
63553576 CCGAAGGCATTTGAACGAG-TAGCTATATCT-GGTTAA
1 CCGAAGGCATTTGTACGAGTTA-CTAAATCTGGGTTAA
63553612 ATTCTGAAGG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 9 0.09
40 86 0.87
41 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCTGGGTTAAGTC
Found at i:63553737 original size:15 final size:15
Alignment explanation
Indices: 63553717--63553746 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63553707 GTATGTGCTT
63553717 TGAATTAGTTGAGCC
1 TGAATTAGTTGAGCC
63553732 TGAATTAGTTGAGCC
1 TGAATTAGTTGAGCC
63553747 CTTACAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
TGAATTAGTTGAGCC
Found at i:63556803 original size:78 final size:81
Alignment explanation
Indices: 63556667--63556850 Score: 234
Period size: 78 Copynumber: 2.3 Consensus size: 81
63556657 TTGAATGATG
*
63556667 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
63556731 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
63556746 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
63556808 TTGTGCGAGTTACTATA
65 TTGTGCGAGATACTATA
* *
63556825 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
63556851 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 48 0.53
79 28 0.31
80 13 0.14
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:63556813 original size:40 final size:40
Alignment explanation
Indices: 63556667--63556850 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
63556657 TTGAATGATG
* * * *
63556667 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
63556707 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63556746 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63556785 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
63556826 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
63556851 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.19
39 24 0.19
40 70 0.55
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63556869 original size:80 final size:77
Alignment explanation
Indices: 63556720--63556873 Score: 202
Period size: 78 Copynumber: 2.0 Consensus size: 77
63556710 GGACTAAGAT
* * **
63556720 CCGAAGGCATTTGTGCGAGATACTAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGATACTAAACCGGGCTAAGTCCGAAGGCATTTGAACGAGTTACTAAA
63556785 TCCGGGTTAAGTC
66 TCC-GGTTAAGTC
* *
63556798 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGATACTA-AACCGGGCTAAGT-CCGAAGGCATTTGAACGAGTTA-CT
*
63556862 ATATCCGGTTAA
63 AAATCCGGTTAA
63556874 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 24 0.36
79 18 0.27
80 24 0.36
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTAAACCGGGCTAAGTCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAGTC
Found at i:63556996 original size:15 final size:15
Alignment explanation
Indices: 63556976--63557005 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63556966 TATGTGCTTT
63556976 GAATTAGTTGAGCCC
1 GAATTAGTTGAGCCC
63556991 GAATTAGTTGAGCCC
1 GAATTAGTTGAGCCC
63557006 TTACAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (15 bp):
GAATTAGTTGAGCCC
Found at i:63560043 original size:77 final size:79
Alignment explanation
Indices: 63559923--63560103 Score: 217
Period size: 77 Copynumber: 2.3 Consensus size: 79
63559913 TGAATGATGT
*
63559923 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAG-TCCCGAAGGCATT
63559986 TGTGCGAGATAC-TAA
64 TGTGCGAGATACATAA
* * * * * **
63560001 TCGGGTTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATTTG
*
63560065 TGCGAGTTACTATAA
66 TGCGAGATAC-ATAA
*
63560080 CCGGGCTATGTCCGAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCATTTG
63560104 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
76 1 0.01
77 46 0.53
78 16 0.18
79 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATTTG
TGCGAGATACATAA
Found at i:63560067 original size:40 final size:39
Alignment explanation
Indices: 63559922--63560103 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
63559912 TTGAATGATG
* * * *
63559922 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
63559962 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
63560001 T-CGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
63560039 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
63560080 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
63560104 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
37 24 0.19
38 10 0.08
39 25 0.20
40 56 0.45
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63560121 original size:79 final size:76
Alignment explanation
Indices: 63559975--63560136 Score: 200
Period size: 79 Copynumber: 2.1 Consensus size: 76
63559965 GGACTAAGAT
* * **
63559975 CCGAAGGCATTTGTGCGAGATACTAATCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGAAGGCATTTGTGCGAGATACTAACCGGGCTAAGTCCGAAGGCATTTGAACGAGTTACTAAAT
*
63560040 CCGGGTTAAGTC
66 CC-GGTTAAATC
* *
63560052 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCGAAGGCATTTGAACGAG-TAGCTA
1 CCGAAGGCATTTGTGCGAGATAC--TAACCGGGCTAAGTCCGAAGGCATTTGAACGAGTTA-CTA
* *
63560116 TATCCGGTTAAATT
63 AATCCGGTTAAATC
63560130 CCGAAGG
1 CCGAAGG
63560137 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
77 22 0.30
78 16 0.22
79 35 0.48
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (76 bp):
CCGAAGGCATTTGTGCGAGATACTAACCGGGCTAAGTCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGTTAAATC
Found at i:63560133 original size:39 final size:39
Alignment explanation
Indices: 63559974--63560136 Score: 183
Period size: 39 Copynumber: 4.2 Consensus size: 39
63559964 CGGACTAAGA
* *
63559974 TCCGAAGGCATTTGTGCGAGATACTA-AT-CGGGTTAAG
1 TCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAT
*
63560011 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
1 TCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAA-T
* * *
63560051 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AT
1 TCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAT
**
63560089 GTCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAAT
1 -TCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAT
63560129 TCCGAAGG
1 TCCGAAGG
63560137 TACGTGATTT
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
37 25 0.23
38 8 0.07
39 41 0.38
40 34 0.31
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAT
Found at i:63564392 original size:28 final size:27
Alignment explanation
Indices: 63564359--63564411 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
63564349 TTAGAATACT
*
63564359 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
63564387 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
63564412 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:63564398 original size:27 final size:27
Alignment explanation
Indices: 63564368--63564466 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
63564358 TTTAGTTTAC
63564368 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
63564395 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
63564422 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
63564449 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
63564467 CCCGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:63564467 original size:54 final size:54
Alignment explanation
Indices: 63564368--63564474 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
63564358 TTTAGTTTAC
* * *
63564368 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
63564422 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
63564475 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:63564517 original size:27 final size:27
Alignment explanation
Indices: 63564463--63564594 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
63564453 ATTACCAAAG
*
63564463 TACCCCCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACTATTT
* *
63564490 TACCCCCGATTTACATAATTACTGTTT
1 TACCCCCGATTTACAGAATTACTATTT
* * *
63564517 TAACCCCGATTTACATAATTACTGTTT
1 TACCCCCGATTTACAGAATTACTATTT
***
63564544 TACCATTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACTATTT
* *
63564571 TACCCTCGATTTACAAAATTACTA
1 TACCCCCGATTTACAGAATTACTA
63564595 AAATACCCTT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACTATTT
Found at i:63564601 original size:27 final size:27
Alignment explanation
Indices: 63564396--63564738 Score: 102
Period size: 27 Copynumber: 12.7 Consensus size: 27
63564386 CTTAGTTTGT
* * **
63564396 AAAAATACTGAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * * **
63564423 AAAATTACTGAAATACCTTCGACTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * *
63564450 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* * *** *
63564477 AGAATTACCATTTTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ****
63564504 ATAATTACTGTTTTAACCC-CGATTTAC
1 AAAATTACTAAAAT-ACCCTCGATTTAC
* **** * *
63564531 ATAATTACTGTTTTACCATTGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ***
63564558 AGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* * **
63564585 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * **
63564612 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACTAAAATACCCTCGA-TTTAC
* * * * **
63564639 AAAATTGCCAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* ** **
63564666 GAAATTA-TCAAAATACCCTTAATTTGT
1 AAAATTACT-AAAATACCCTCGATTTAC
* *
63564693 AAAATTACCAAAATACCC-CTAATTTAC
1 AAAATTACTAAAATACCCTC-GATTTAC
*
63564720 AAAGTTAC-AGAAATACCCT
1 AAAATTACTA-AAATACCCT
63564739 TAACTTTCTA
Statistics
Matches: 256, Mismatches: 51, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.02
27 248 0.97
28 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTAC
Found at i:63564618 original size:54 final size:54
Alignment explanation
Indices: 63564571--63564710 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
63564561 ATTACTATTT
*
63564571 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCC-CGAGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* ** * * *
63564625 TACCCCTAGTTTGTAAAATTGCCAAAATACCCTTGGTTTGTGAAATTATCAAAA
1 TACCCCGAGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
** * **
63564679 TACCCTTAATTTGTAAAATTACCAAAATACCC
1 TACCCCGAGTTTACAAAATTACCAAAATACCC
63564711 CTAATTTACA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
53 2 0.03
54 73 0.97
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCCGAGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:63564734 original size:54 final size:54
Alignment explanation
Indices: 63564585--63564751 Score: 151
Period size: 54 Copynumber: 3.1 Consensus size: 54
63564575 CTCGATTTAC
* * ** * * *
63564585 AAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTG-ACAAATTATCAAAATACCCTTAATTTGT
* * ** **
63564639 AAAATTGCCAAAATACCCTTGGTTTGTGAAATTATCAAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCCTAATTTGACAAATTATCAAAATACCCTTAATTTGT
*
63564693 AAAATTACCAAAATACCCCTAATTT-ACAAAGTTA-CAGAAATACCCTTAACTTTCT
1 AAAATTACCAAAATACCCCTAATTTGACAAA-TTATCA-AAATACCCTTAA-TTTGT
63564748 AAAA
1 AAAA
63564752 ATTATAGAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 5 0.05
54 83 0.86
55 8 0.08
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGACAAATTATCAAAATACCCTTAATTTGT
Found at i:63564734 original size:81 final size:81
Alignment explanation
Indices: 63564586--63564739 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 81
63564576 TCGATTTACA
** * ** *
63564586 AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTGCCAAA
1 AAATTACTAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTGACAAA
63564651 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
*
63564667 AAATTA-TCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTT-ACAG
1 AAATTACT-AAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTGACA-
63564730 AAATACCCTT
64 AAATACCCTT
63564740 AACTTTCTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 3 0.05
81 61 0.95
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTACTAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTGACAAA
ATACCCTTGGTTTGTG
Found at i:63564884 original size:27 final size:27
Alignment explanation
Indices: 63564841--63564914 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
63564831 AAATGACTAA
*
63564841 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
63564868 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
63564895 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
63564915 TGATGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:63566122 original size:25 final size:25
Alignment explanation
Indices: 63566076--63566123 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63566066 TTATAACATG
* *
63566076 AAAATGACCATTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
63566101 AAAATGACCATTATACCTCTAGG
1 AAAATGACCATTATACCCCTAGG
63566124 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:63566263 original size:24 final size:24
Alignment explanation
Indices: 63566236--63566402 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
63566226 GGGGAAGTGA
63566236 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
63566260 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
63566284 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
63566308 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
63566331 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
63566355 AAAAGGGCTTTTACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
63566379 AAAAGAGGC-TATGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
63566403 ATGATAAAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
23 21 0.16
24 99 0.76
25 11 0.08
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:63582142 original size:18 final size:18
Alignment explanation
Indices: 63582121--63582157 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
63582111 CACACATGTG
63582121 ACCTAAATACTACATAGT
1 ACCTAAATACTACATAGT
**
63582139 ACCTAGCTACTACATAGT
1 ACCTAAATACTACATAGT
63582157 A
1 A
63582158 TCTCGTAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (18 bp):
ACCTAAATACTACATAGT
Found at i:63608394 original size:11 final size:12
Alignment explanation
Indices: 63608365--63608393 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
63608355 AGCAAAATAG
63608365 GTTTTTAGCGGC
1 GTTTTTAGCGGC
63608377 GTTTTTAGCGGC
1 GTTTTTAGCGGC
63608389 GTTTT
1 GTTTT
63608394 AATAGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.14, G:0.31, T:0.48
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:63609352 original size:15 final size:14
Alignment explanation
Indices: 63609334--63609436 Score: 81
Period size: 14 Copynumber: 7.2 Consensus size: 14
63609324 CTATTTAAAA
63609334 GTTTAGGGTTTATGG
1 GTTTAGGG-TTATGG
63609349 GTTTAGGGATTAT--
1 GTTTAGGG-TTATGG
*
63609362 GTTTATGGCTTAT-G
1 GTTTA-GGGTTATGG
*
63609376 GTTTAAGGGTT-GGG
1 GTTT-AGGGTTATGG
63609390 GTTTAAGGGTTATGG
1 GTTT-AGGGTTATGG
*
63609405 G-TTAGTGGTTAGGG
1 GTTTAG-GGTTATGG
63609419 GTTTATGGGTTATGG
1 GTTTA-GGGTTATGG
63609434 GTT
1 GTT
63609437 AATGGTTTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
13 11 0.15
14 32 0.44
15 29 0.40
16 1 0.01
ACGTcount: A:0.16, C:0.01, G:0.40, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTATGG
Found at i:63609420 original size:29 final size:29
Alignment explanation
Indices: 63609362--63609451 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
63609352 TAGGGATTAT
* * * *
63609362 GTTTATGGCTTATGGTTTAAGGGTT-GGG
1 GTTTAAGGGTTATGGGTTAATGGTTAGGG
*
63609390 GTTTAAGGGTTATGGGTTAGTGGTTAGGG
1 GTTTAAGGGTTATGGGTTAATGGTTAGGG
*
63609419 GTTTATGGGTTATGGGTTAATGGTTTAGGG
1 GTTTAAGGGTTATGGGTTAATGG-TTAGGG
63609449 GTT
1 GTT
63609452 AATGCTTAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
28 20 0.38
29 24 0.45
30 9 0.17
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.42
Consensus pattern (29 bp):
GTTTAAGGGTTATGGGTTAATGGTTAGGG
Found at i:63609466 original size:22 final size:22
Alignment explanation
Indices: 63609392--63609466 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
63609382 GGGTTGGGGT
*
63609392 TTAAGGG-TTATGGGTTAGTGG
1 TTAAGGGTTTATGGGTTAATGG
*
63609413 TTAGGGGTTTATGGGTT-ATGGG
1 TTAAGGGTTTATGGGTTAAT-GG
* * *
63609435 TTAATGGTTTAGGGGTTAATGC
1 TTAAGGGTTTATGGGTTAATGG
63609457 TTAAGGGTTT
1 TTAAGGGTTT
63609467 TTATTTTGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 7 0.16
22 35 0.80
23 2 0.05
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.41
Consensus pattern (22 bp):
TTAAGGGTTTATGGGTTAATGG
Found at i:63609884 original size:28 final size:29
Alignment explanation
Indices: 63609820--63609892 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 29
63609810 ATGATTAATT
63609820 CATATA-TTTTGTGG-TTAAGGCTTAGGG
1 CATATAGTTTTGTGGTTTAAGGCTTAGGG
* * *
63609847 CTTATTGTTTTGTGGTTTATGG-TTAGGG
1 CATATAGTTTTGTGGTTTAAGGCTTAGGG
* *
63609875 GATATAGTTTAG-GGTTTA
1 CATATAGTTTTGTGGTTTA
63609893 GGGGATATAC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 10 0.27
28 22 0.59
29 5 0.14
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (29 bp):
CATATAGTTTTGTGGTTTAAGGCTTAGGG
Found at i:63609895 original size:21 final size:21
Alignment explanation
Indices: 63609861--63609913 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
63609851 TTGTTTTGTG
*
63609861 GTTTATGG-TTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
63609881 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
*
63609902 CTTTAGGGTTTA
1 GTTTAGGGTTTA
63609914 AGGTTATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGGATATA
Found at i:63609900 original size:201 final size:203
Alignment explanation
Indices: 63609477--63609971 Score: 784
Period size: 202 Copynumber: 2.4 Consensus size: 203
63609467 TTATTTTGTG
* * *
63609477 GTTTAAGGTTTAGGGGATACAGTTTGGGGTACTTTAGTAGGGGGATATAGTTTAATGGTTTAAGG
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGGATATAGTTTAATGGTTTAAGG
* *
63609542 TTTAGAGTATTTATTAATTAGTGTTATTATTTTATGGTTTAAGGATCAAGGGATATAGTTTAGGG
66 TTTAGAGTATTGATTAATTAGTGTTATTATTTTATGGTTTAAGGATCAAGGGATATAGTTCAGGG
63609607 TTATGATTAATTCATACATTTTGTGGTTAAGGCTTAAGGGTTATTGTTTTGTGGTTTATGGTTAG
131 TTATGATTAATTCATACATTTTGTGGTTAAGGCTTAAGGGTTATTGTTTTGTGGTTTATGGTTAG
*
63609672 GGGTTATA
196 GGGATATA
* *
63609680 GTTCAGGGTTTAAGGGATATAGTTTAGGGTACTTTAGTA-GGGGATATAGTTTAATGGTTTAAGG
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGGATATAGTTTAATGGTTTAAGG
*
63609744 TTTAGAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAGGATCAAGGGATATAGTTCA-GG
66 TTTAGAGTATTGATTAATTAGTGTTATTATTTTATGGTTTAAGGATCAAGGGATATAGTTCAGGG
*
63609808 TTATGATTAATTCATATATTTTGTGGTTAAGGCTT-AGGGCTTATTGTTTTGTGGTTTATGGTTA
131 TTATGATTAATTCATACATTTTGTGGTTAAGGCTTAAGGG-TTATTGTTTTGTGGTTTATGGTTA
63609872 GGGGATATA
195 GGGGATATA
* * **
63609881 GTTTAGGGTTTAGGGGATATACTTTAGGGT--TTAAGGTTATAGGGATATAGTTTAATGGTTTAA
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTA-G-TAGGGGGATATAGTTTAATGGTTTAA
* *
63609944 TGTTTAGAGTTTTGATTAATTAGTGTTA
64 GGTTTAGAGTATTGATTAATTAGTGTTA
63609972 ATAATATTAA
Statistics
Matches: 271, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
199 3 0.01
200 5 0.02
201 97 0.36
202 132 0.49
203 34 0.13
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.44
Consensus pattern (203 bp):
GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGGATATAGTTTAATGGTTTAAGG
TTTAGAGTATTGATTAATTAGTGTTATTATTTTATGGTTTAAGGATCAAGGGATATAGTTCAGGG
TTATGATTAATTCATACATTTTGTGGTTAAGGCTTAAGGGTTATTGTTTTGTGGTTTATGGTTAG
GGGATATA
Found at i:63609918 original size:28 final size:29
Alignment explanation
Indices: 63609881--63609950 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
63609871 AGGGGATATA
*
63609881 GTTTAGGGTTTAGGGGATATACTTT-AGG
1 GTTTAAGGTTTAGGGGATATACTTTAAGG
* *
63609909 GTTTAAGGTTATA-GGGATATAGTTTAATG
1 GTTTAAGGTT-TAGGGGATATACTTTAAGG
*
63609938 GTTTAATGTTTAG
1 GTTTAAGGTTTAG
63609951 AGTTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.43
Consensus pattern (29 bp):
GTTTAAGGTTTAGGGGATATACTTTAAGG
Found at i:63613165 original size:14 final size:13
Alignment explanation
Indices: 63613142--63613171 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
63613132 ATTACTATAA
63613142 TAATTATATGAAG
1 TAATTATATGAAG
63613155 TAATATATATGAAG
1 TAAT-TATATGAAG
63613169 TAA
1 TAA
63613172 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:63614631 original size:9 final size:9
Alignment explanation
Indices: 63614614--63614905 Score: 90
Period size: 9 Copynumber: 33.3 Consensus size: 9
63614604 GTTTACCAAC
*
63614614 AATTCACAT
1 AATTTACAT
63614623 AATTTACAT
1 AATTTACAT
*
63614632 AATTTAAAT
1 AATTTACAT
63614641 AA--TACAT
1 AATTTACAT
*
63614648 AACTTACAT
1 AATTTACAT
63614657 AATTT--A-
1 AATTTACAT
*
63614663 AAGTT-CA-
1 AATTTACAT
63614670 AATTT-CAT
1 AATTTACAT
*
63614678 AACTTACAT
1 AATTTACAT
*
63614687 AATTTACTT
1 AATTTACAT
*
63614696 AACTTACAT
1 AATTTACAT
63614705 AA--TACAT
1 AATTTACAT
* *
63614712 GACTTACAT
1 AATTTACAT
*
63614721 AATTTAAAGAT
1 AATTT--ACAT
63614732 CAAATTT-CAT
1 --AATTTACAT
*
63614742 AACTTACAT
1 AATTTACAT
*
63614751 GA--TACAT
1 AATTTACAT
*
63614758 AACTTACAT
1 AATTTACAT
63614767 AATTTAAAGACCA-
1 AATTT----A-CAT
63614780 AATTT-CAT
1 AATTTACAT
*
63614788 AAGTTACAT
1 AATTTACAT
63614797 AATTTACAT
1 AATTTACAT
*
63614806 AATAATT-TA-
1 AAT--TTACAT
*
63614815 AAGTT-CA-
1 AATTTACAT
63614822 AATTT-CAT
1 AATTTACAT
*
63614830 AACTTACAT
1 AATTTACAT
63614839 AA--TACAT
1 AATTTACAT
*
63614846 AACTTACAT
1 AATTTACAT
*
63614855 AATTTAAAGAT
1 AATTT--ACAT
*
63614866 CAAAATT-CAT
1 --AATTTACAT
*
63614876 GATTTACAT
1 AATTTACAT
63614885 AATTTACAT
1 AATTTACAT
*
63614894 AACTTACAT
1 AATTTACAT
63614903 AAT
1 AAT
63614906 ACATGACTTA
Statistics
Matches: 215, Mismatches: 36, Indels: 64
0.68 0.11 0.20
Matches are distributed among these distances:
6 4 0.02
7 44 0.20
8 19 0.09
9 118 0.55
10 5 0.02
11 8 0.04
13 15 0.07
14 2 0.01
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (9 bp):
AATTTACAT
Found at i:63614681 original size:30 final size:30
Alignment explanation
Indices: 63614645--63614750 Score: 124
Period size: 30 Copynumber: 3.4 Consensus size: 30
63614635 TTAAATAATA
63614645 CATAACTTACATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
63614675 CATAACTTACATAATTTACTTAACTTACATAA-TA
1 CATAACTTACATAATTTA---AAGTT-CA-AATTT
* *
63614709 CATGACTTACATAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
63614739 CATAACTTACAT
1 CATAACTTACAT
63614751 GATACATAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
29 2 0.03
30 32 0.51
31 3 0.05
33 4 0.06
34 20 0.32
35 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (30 bp):
CATAACTTACATAATTTAAAGTTCAAATTT
Found at i:63614707 original size:64 final size:64
Alignment explanation
Indices: 63614619--63614925 Score: 295
Period size: 64 Copynumber: 4.7 Consensus size: 64
63614609 CCAACAATTC
* * *
63614619 ACATAATTTACATAATTTAAATAATACATAACTTACATAATTTAAAGTTCAAATTTCATAACTT
1 ACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTT
* *
63614683 ACATAATTTACTTAACTTACATAATACATGACTTACATAATTTAAAGATCAAATTTCATAACTT
1 ACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTT
* * ** *
63614747 ACATGA--TACATAACTTACATAAT--TTAA-AGACCA-AATTTCATAAGTTACATAATTTACAT
1 ACATAATTTACATAACTTACATAATACATAACTTA-CATAATTT-A-AAGAT-CA-AATTT-C--
*
63614806 AATAATTT
58 -ATAACTT
* * *
63614814 AAAGTTCAAATTT-CATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTCATGA
1 ACA--T--AATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAA
*
63614878 TTT
62 CTT
* *
63614881 ACATAATTTACATAACTTACATAATACATGACTTACATAACTTAA
1 ACATAATTTACATAACTTACATAATACATAACTTACATAATTTAA
63614926 TTATACTTAT
Statistics
Matches: 199, Mismatches: 24, Indels: 40
0.76 0.09 0.15
Matches are distributed among these distances:
59 6 0.03
60 5 0.03
61 4 0.02
62 18 0.09
63 10 0.05
64 98 0.49
65 1 0.01
67 16 0.08
69 1 0.01
70 1 0.01
71 5 0.03
72 17 0.09
73 5 0.03
74 6 0.03
75 6 0.03
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.36
Consensus pattern (64 bp):
ACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTT
Found at i:63614756 original size:46 final size:46
Alignment explanation
Indices: 63614695--63614905 Score: 286
Period size: 46 Copynumber: 4.6 Consensus size: 46
63614685 ATAATTTACT
*
63614695 TAACTTACATAATACATGACTTACATAATTTAAAGATCAAATTTCA
1 TAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCA
* *
63614741 TAACTTACATGATACATAACTTACATAATTTAAAGACCAAATTTCA
1 TAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCA
* * * *
63614787 TAAGTTACATAAT---TTACATA-ATAATTTAAAGTTCAAATTTCA
1 TAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCA
*
63614829 TAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTCA
1 TAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCA
* *
63614875 TGATTTACATAATTTACATAACTTACATAAT
1 TAACTTACATAA--TACATAACTTACATAAT
63614906 ACATGACTTA
Statistics
Matches: 143, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
42 32 0.22
43 5 0.03
45 5 0.03
46 84 0.59
48 17 0.12
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (46 bp):
TAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCA
Found at i:63614824 original size:42 final size:42
Alignment explanation
Indices: 63614765--63614895 Score: 154
Period size: 42 Copynumber: 3.0 Consensus size: 42
63614755 CATAACTTAC
* *
63614765 ATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATA
1 ATAATTTAAAGATCAAATTTCATAACTTACATAATTTACATA
* * *
63614807 ATAATTTAAAGTTCAAATTTCATAACTTACATAATACATAACTTA
1 ATAATTTAAAGATCAAATTTCATAACTTACATAAT---TTACATA
* * *
63614852 CATAATTTAAAGATCAAAATTCATGATTTACATAATTTACATA
1 -ATAATTTAAAGATCAAATTTCATAACTTACATAATTTACATA
63614895 A
1 A
63614896 CTTACATAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
42 33 0.45
43 5 0.07
45 5 0.07
46 31 0.42
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (42 bp):
ATAATTTAAAGATCAAATTTCATAACTTACATAATTTACATA
Found at i:63614826 original size:88 final size:88
Alignment explanation
Indices: 63614719--63614895 Score: 300
Period size: 88 Copynumber: 2.0 Consensus size: 88
63614709 CATGACTTAC
* *
63614719 ATAATTTAAAGATCAAATTTCATAACTTACATGATACATAACTTACATAATTTAAAGACCAAATT
1 ATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGACCAAAAT
63614784 TCATAAGTTACATAATTTACATA
66 TCATAAGTTACATAATTTACATA
* *
63614807 ATAATTTAAAGTTCAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAAT
1 ATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGACCAAAAT
* *
63614872 TCATGATTTACATAATTTACATA
66 TCATAAGTTACATAATTTACATA
63614895 A
1 A
63614896 CTTACATAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (88 bp):
ATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAAAGACCAAAAT
TCATAAGTTACATAATTTACATA
Found at i:63614848 original size:16 final size:16
Alignment explanation
Indices: 63614827--63614920 Score: 75
Period size: 16 Copynumber: 5.9 Consensus size: 16
63614817 GTTCAAATTT
63614827 CATAACTTACATAATA
1 CATAACTTACATAATA
*
63614843 CATAACTTACATAATT
1 CATAACTTACATAATA
* ** * *
63614859 TA-AAGAT-CAAAATT
1 CATAACTTACATAATA
* *
63614873 CATGATTTACATAATTTA
1 CATAACTTACATAA--TA
63614891 CATAACTTACATAATA
1 CATAACTTACATAATA
*
63614907 CATGACTTACATAA
1 CATAACTTACATAA
63614921 CTTAATTATA
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
14 7 0.12
15 5 0.08
16 35 0.58
18 13 0.22
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:63614917 original size:9 final size:9
Alignment explanation
Indices: 63614827--63614924 Score: 62
Period size: 9 Copynumber: 11.0 Consensus size: 9
63614817 GTTCAAATTT
63614827 CATAACTTA
1 CATAACTTA
63614836 CATAA--TA
1 CATAACTTA
63614843 CATAACTTA
1 CATAACTTA
*
63614852 CATAATTTAAA
1 CATAACTT--A
* *
63614863 GATCAAAATT-
1 CAT--AACTTA
* *
63614873 CATGATTTA
1 CATAACTTA
*
63614882 CATAATTTA
1 CATAACTTA
63614891 CATAACTTA
1 CATAACTTA
63614900 CATAA--TA
1 CATAACTTA
*
63614907 CATGACTTA
1 CATAACTTA
63614916 CATAACTTA
1 CATAACTTA
63614925 ATTATACTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
7 13 0.19
8 3 0.04
9 45 0.64
10 2 0.03
11 3 0.04
13 4 0.06
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:63621322 original size:17 final size:18
Alignment explanation
Indices: 63621300--63621334 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
63621290 CATAACAGTC
63621300 CACATTTTCCT-TCCTTT
1 CACATTTTCCTATCCTTT
*
63621317 CACATTTTTCTATCCTTT
1 CACATTTTCCTATCCTTT
63621335 TCTACAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.54
Consensus pattern (18 bp):
CACATTTTCCTATCCTTT
Done.