Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 164 of 187
Found at i:49808538 original size:3 final size:3
Alignment explanation
Indices: 49808530--49808573 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
49808520 ATATAATTCA
49808530 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49808574 AAGAAACCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49815126 original size:58 final size:57
Alignment explanation
Indices: 49815005--49815152 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 57
49814995 TTGGCACTTT
* *
49815005 ATTTTTTCTAATTTGGTATCTAAATTTTTTTGGCTCAATTTGGTACTTGAATTTAAC
1 ATTTTTTCTAATTTGGTATCTAAACTTTTTTGGCTCAATTTGGTACTTGAACTTAAC
* *
49815062 ACTTTTTT-TAAATTTGGTATCTAAACTTTTTTGGGTCATATTTGGTACTTGAACTTGAC
1 A-TTTTTTCT-AATTTGGTATCTAAACTTTTTTGGCTCA-ATTTGGTACTTGAACTTAAC
* *
49815121 -TTTTTTCCTAATTTGGTACCTAAGCATTTTTT
1 ATTTTTT-CTAATTTGGTATCTAAAC-TTTTTT
49815153 TTAGGTTTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
57 8 0.10
58 46 0.58
59 25 0.32
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.52
Consensus pattern (57 bp):
ATTTTTTCTAATTTGGTATCTAAACTTTTTTGGCTCAATTTGGTACTTGAACTTAAC
Found at i:49815296 original size:25 final size:25
Alignment explanation
Indices: 49815268--49815315 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
49815258 AAAGGAAATT
49815268 TATG-TTAAAAAATTAGATATTAAGC
1 TATGCTTAAAAAATTA-ATATTAAGC
**
49815293 TATGCTTAATGAATTAATATTAA
1 TATGCTTAAAAAATTAATATTAA
49815316 AGAAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (25 bp):
TATGCTTAAAAAATTAATATTAAGC
Found at i:49816064 original size:136 final size:136
Alignment explanation
Indices: 49815809--49816185 Score: 479
Period size: 136 Copynumber: 2.8 Consensus size: 136
49815799 TGCATTTAAT
* * ** * * * *
49815809 TGTGCGTTGTGTACCCACAGCAAAAGCATATTCCAACTGCGTCCATTTTACCGTGCAAGCACAAC
1 TGTGCGCTGTGTATCCACAAAAAAAACAGATTCCAACTGCGTCCATTTTACTGTGCGAGCACAAC
* *
49815874 CCTCTGACAACTTTTATCTGTGAGTATGTTGTGATTCCACTGCAATTGTCAGATTTTATCTGCAT
66 CCTCTGACAACTTTTATCTGCGAGTATGTTGTGATTCCACTGCAATTGTAAGATTTTATCTGCAT
*
49815939 TATATG
131 TATATA
* *
49815945 TGTGCGCTGTGTATCCACAAAAAAAATAGATTCCAACTGCGTCCATTTTACTGTGTGAGCACAAC
1 TGTGCGCTGTGTATCCACAAAAAAAACAGATTCCAACTGCGTCCATTTTACTGTGCGAGCACAAC
* * * *
49816010 CCTCTGACAGCTTTTTTCTGCGAGTATGTTGTGTTTCCA-TGGCTATTAG-AAGATTTTATCTGC
66 CCTCTGACAACTTTTATCTGCGAGTATGTTGTGATTCCACT-GCAATT-GTAAGATTTTATCTGC
49816073 ATTATATA
129 ATTATATA
** * * * * *
49816081 TGTGCGCTGTGTATCCACAGCAAAAGCAGATTCCAAATGCGTCCATTTTATTGTACGAGCAGAAC
1 TGTGCGCTGTGTATCCACAAAAAAAACAGATTCCAACTGCGTCCATTTTACTGTGCGAGCACAAC
* * *
49816146 CCTCTAACAACTTTTATCTGCGAGCATGTTGTGCTTCCAC
66 CCTCTGACAACTTTTATCTGCGAGTATGTTGTGATTCCAC
49816186 GGCCAGTGGC
Statistics
Matches: 207, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
135 1 0.00
136 205 0.99
137 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (136 bp):
TGTGCGCTGTGTATCCACAAAAAAAACAGATTCCAACTGCGTCCATTTTACTGTGCGAGCACAAC
CCTCTGACAACTTTTATCTGCGAGTATGTTGTGATTCCACTGCAATTGTAAGATTTTATCTGCAT
TATATA
Found at i:49816595 original size:39 final size:39
Alignment explanation
Indices: 49816551--49816627 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
49816541 TGCGAAACTA
*
49816551 TTTGTCATTGTACTGAATTGATTGACATGTGAAATTGTG
1 TTTGTCATTGTACTGAATTGATTAACATGTGAAATTGTG
49816590 TTTGTCATTGTACTGAATTGATTAACATGTGAAATTGT
1 TTTGTCATTGTACTGAATTGATTAACATGTGAAATTGT
49816628 TTGCTATTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (39 bp):
TTTGTCATTGTACTGAATTGATTAACATGTGAAATTGTG
Found at i:49817781 original size:3 final size:3
Alignment explanation
Indices: 49817773--49817816 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
49817763 ATATAATTCA
49817773 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49817817 AAGAAACCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49827298 original size:29 final size:29
Alignment explanation
Indices: 49827263--49827319 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
49827253 CCATTTAATT
*
49827263 TTATTTCTCTTAATTTATTTTGCAATCAC
1 TTATTTCGCTTAATTTATTTTGCAATCAC
49827292 TTATTTCGCTTAATTTATTTTGCAATCA
1 TTATTTCGCTTAATTTATTTTGCAATCA
49827320 TGTTTTTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (29 bp):
TTATTTCGCTTAATTTATTTTGCAATCAC
Found at i:49833558 original size:14 final size:15
Alignment explanation
Indices: 49833536--49833564 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49833526 ATTTATCTAT
49833536 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
49833551 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
49833565 AATCACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:49834530 original size:26 final size:26
Alignment explanation
Indices: 49834501--49834550 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
49834491 TGTATTTTTA
*
49834501 ATTTCA-TAATAATATAAAAATATAAT
1 ATTTCATTAAAAAT-TAAAAATATAAT
*
49834527 ATTTTATTAAAAATTAAAAATATA
1 ATTTCATTAAAAATTAAAAATATA
49834551 TAGAATTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
ATTTCATTAAAAATTAAAAATATAAT
Found at i:49838774 original size:24 final size:24
Alignment explanation
Indices: 49838747--49838798 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
49838737 AATCACAATC
* *
49838747 AAATACATTATGCTAATAAATGCT
1 AAATACATTATACTAATAAATACT
* *
49838771 AAATATATTATACTCATAAATACT
1 AAATACATTATACTAATAAATACT
49838795 AAAT
1 AAAT
49838799 CTCCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATACATTATACTAATAAATACT
Found at i:49839846 original size:26 final size:27
Alignment explanation
Indices: 49839796--49839846 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
49839786 AAATATTAGA
* *
49839796 AACAATTAAACACGAACAAAATAGAAT
1 AACAAATAAACACAAACAAAATAGAAT
*
49839823 AACAAATAAACA-AAACAAGATAGA
1 AACAAATAAACACAAACAAAATAGA
49839847 TGGAAAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.67, C:0.14, G:0.08, T:0.12
Consensus pattern (27 bp):
AACAAATAAACACAAACAAAATAGAAT
Found at i:49844503 original size:15 final size:14
Alignment explanation
Indices: 49844473--49844512 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
49844463 TAAAAAGAAG
*
49844473 TAATTAAA-ATAAA
1 TAATTAAATAAAAA
49844486 TAATTAAGATAAAAA
1 TAATTAA-ATAAAAA
49844501 TAATTAAATAAA
1 TAATTAAATAAA
49844513 TCAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 6 0.25
15 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
TAATTAAATAAAAA
Found at i:49844999 original size:19 final size:19
Alignment explanation
Indices: 49844975--49845016 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49844965 CAAAATTCAA
49844975 AATAAATACATAATAAA-AT
1 AATAAA-ACATAATAAATAT
*
49844994 AATAAAATATAATAAATAT
1 AATAAAACATAATAAATAT
49845013 AATA
1 AATA
49845017 TTGGGCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAAAACATAATAAATAT
Found at i:49845012 original size:9 final size:9
Alignment explanation
Indices: 49844984--49845016 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
49844974 AAATAAATAC
49844984 ATAATAAA-
1 ATAATAAAT
49844992 ATAATAAAAT
1 ATAAT-AAAT
49845002 ATAATAAAT
1 ATAATAAAT
49845011 ATAATA
1 ATAATA
49845017 TTGGGCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 13 0.57
10 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
ATAATAAAT
Found at i:49847586 original size:99 final size:99
Alignment explanation
Indices: 49847477--49847674 Score: 378
Period size: 99 Copynumber: 2.0 Consensus size: 99
49847467 AAAACTACGT
* *
49847477 TCGAGGTGTTCCTGATTTCAAAAAATCACAAAATTTAAACTAGAGTTTCCTCACATAATGCAGAT
1 TCGAGGTGTTCCTAATTTCAAAAAATCACAAAATTTAAACTAGAGTTTCCTCAAATAATGCAGAT
49847542 CTAATATGAAAATTTTTGGCACAAAATTCAACCA
66 CTAATATGAAAATTTTTGGCACAAAATTCAACCA
49847576 TCGAGGTGTTCCTAATTTCAAAAAATCACAAAATTTAAACTAGAGTTTCCTCAAATAATGCAGAT
1 TCGAGGTGTTCCTAATTTCAAAAAATCACAAAATTTAAACTAGAGTTTCCTCAAATAATGCAGAT
49847641 CTAATATGAAAATTTTTGGCACAAAATTCAACCA
66 CTAATATGAAAATTTTTGGCACAAAATTCAACCA
49847675 CTAGAATGTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (99 bp):
TCGAGGTGTTCCTAATTTCAAAAAATCACAAAATTTAAACTAGAGTTTCCTCAAATAATGCAGAT
CTAATATGAAAATTTTTGGCACAAAATTCAACCA
Found at i:49847737 original size:78 final size:78
Alignment explanation
Indices: 49847608--49847751 Score: 209
Period size: 78 Copynumber: 1.8 Consensus size: 78
49847598 AAATCACAAA
* * *
49847608 ATTTAAACTAGAGTTTCCTCAAATAATGCAGATCTAATATGAAAATTTTTGGCACAAAATTCAAC
1 ATTTAAACTAGAGTTTCCTCAAATAACGCAGAACTAATATGAAAAGTTTTGGCACAAAATTCAAC
49847673 CACTAGAATGTTT
66 CACTAGAATGTTT
* * * *
49847686 ATTTAAATTGGAGTTTCCTCAAATAACGTAGAACTAATCT-AGAAAGTTTTGGCACAAAATTCAA
1 ATTTAAACTAGAGTTTCCTCAAATAACGCAGAACTAATATGA-AAAGTTTTGGCACAAAATTCAA
49847750 CC
65 CC
49847752 CACAATTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 1 0.02
78 57 0.98
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (78 bp):
ATTTAAACTAGAGTTTCCTCAAATAACGCAGAACTAATATGAAAAGTTTTGGCACAAAATTCAAC
CACTAGAATGTTT
Found at i:49849162 original size:17 final size:18
Alignment explanation
Indices: 49849125--49849162 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
49849115 ATTTTTTAAA
*
49849125 AATCAATATTTAGTTTTAT
1 AATCAATATTTAG-CTTAT
49849144 AATCAATATTTA-CTTAT
1 AATCAATATTTAGCTTAT
49849161 AA
1 AA
49849163 AAATTAGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (18 bp):
AATCAATATTTAGCTTAT
Found at i:49849404 original size:13 final size:13
Alignment explanation
Indices: 49849386--49849410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49849376 TTTTCTTTGT
49849386 TTTTTATTTTATC
1 TTTTTATTTTATC
49849399 TTTTTATTTTAT
1 TTTTTATTTTAT
49849411 AACACATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTATC
Found at i:49851193 original size:14 final size:14
Alignment explanation
Indices: 49851170--49851238 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
49851160 TGTATGAGTA
49851170 TCTGTATCTGTATT
1 TCTGTATCTGTATT
* *
49851184 TCTGTGTCTGTATA
1 TCTGTATCTGTATT
* ** *
49851198 TCCGTATCCCTATA
1 TCTGTATCTGTATT
* *
49851212 TCTTTATTTGTATT
1 TCTGTATCTGTATT
*
49851226 TCTATATCTGTAT
1 TCTGTATCTGTAT
49851239 ACGGGGTGAC
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (14 bp):
TCTGTATCTGTATT
Found at i:49856530 original size:25 final size:26
Alignment explanation
Indices: 49856502--49856554 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
49856492 CACTTTTGAG
49856502 TTAATAAAA-TTCT-TTGAGTTTTCTT
1 TTAA-AAAATTTCTCTTGAGTTTTCTT
*
49856527 TTAAAAAATTTCTCTTGAGTTTTTTT
1 TTAAAAAATTTCTCTTGAGTTTTCTT
49856553 TT
1 TT
49856555 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 8 0.32
26 13 0.52
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (26 bp):
TTAAAAAATTTCTCTTGAGTTTTCTT
Found at i:49856560 original size:25 final size:25
Alignment explanation
Indices: 49856502--49856562 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
49856492 CACTTTTGAG
*
49856502 TTAATAAAATTCTTTGAGTTTTCTT
1 TTAATAAATTTCTTTGAGTTTTCTT
*
49856527 TTAAAAAATTTCTCTTGAGTTTT-TT
1 TTAATAAATTTCT-TTGAGTTTTCTT
**
49856552 TTTTTAAATTT
1 TTAATAAATTT
49856563 AACAATCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (25 bp):
TTAATAAATTTCTTTGAGTTTTCTT
Found at i:49857576 original size:20 final size:21
Alignment explanation
Indices: 49857551--49857590 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49857541 TGTCTTTATC
*
49857551 AATTTT-TATATAAATTTTAA
1 AATTTTCTAAATAAATTTTAA
*
49857571 AATTTTCTAAATAAGTTTTA
1 AATTTTCTAAATAAATTTTA
49857591 CTAATTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
AATTTTCTAAATAAATTTTAA
Found at i:49857679 original size:24 final size:24
Alignment explanation
Indices: 49857634--49857679 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
49857624 TCATTAACTG
*
49857634 TTAGGTACAAAAATAGTGCAAAGT
1 TTAGGTACAAAAATAGTACAAAGT
*
49857658 TTAGGTACCAAAATGAG-ACAAA
1 TTAGGTACAAAAAT-AGTACAAA
49857680 AATATAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (24 bp):
TTAGGTACAAAAATAGTACAAAGT
Found at i:49861873 original size:13 final size:13
Alignment explanation
Indices: 49861855--49861880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49861845 AGGTGTAGGC
49861855 CCACATGGGCATG
1 CCACATGGGCATG
49861868 CCACATGGGCATG
1 CCACATGGGCATG
49861881 TGGGTTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
CCACATGGGCATG
Found at i:49864087 original size:24 final size:24
Alignment explanation
Indices: 49864058--49864105 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
49864048 CGAGGAGGTT
*
49864058 AAGCGCGTGGAGCACTAAAATAGA
1 AAGCGCGTGGAGAACTAAAATAGA
*
49864082 AAGCGCGTGGAGAACTAGAATAGA
1 AAGCGCGTGGAGAACTAAAATAGA
49864106 GACCGAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.31, T:0.12
Consensus pattern (24 bp):
AAGCGCGTGGAGAACTAAAATAGA
Found at i:49864704 original size:21 final size:22
Alignment explanation
Indices: 49864649--49864705 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
49864639 TATTAGGTTA
*
49864649 ATTGAATTGGTATGTTTATATATG
1 ATTGAA-T-GTATGTTTAAATATG
* *
49864673 ATTGAA-ATATGTTTAAATCT-
1 ATTGAATGTATGTTTAAATATG
49864693 ATTGAATGTATGT
1 ATTGAATGTATGT
49864706 ACAAATAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 6 0.21
21 16 0.57
24 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (22 bp):
ATTGAATGTATGTTTAAATATG
Found at i:49864937 original size:54 final size:54
Alignment explanation
Indices: 49864868--49865012 Score: 175
Period size: 54 Copynumber: 2.7 Consensus size: 54
49864858 GTATACTTAT
* * * * * *
49864868 CACACGGTCTGCGACACGACCGTGTGTATCAAGTTAGT-GAGTCACATGGTCTGG
1 CACACGGTCTACGACACGACCGTGTGTATCAAGTCAGTAAACT-ACATGATATGG
* * *
49864922 CACACAGTCTACGACACAACTGTGTGTATCAAGTCAGTAAACTACATGATATGG
1 CACACGGTCTACGACACGACCGTGTGTATCAAGTCAGTAAACTACATGATATGG
* *
49864976 CACATGGTCTACGACACGGCCGTGTGTATCAAGTCAG
1 CACACGGTCTACGACACGACCGTGTGTATCAAGTCAG
49865013 AGAGTTACAC
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 74 0.97
55 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (54 bp):
CACACGGTCTACGACACGACCGTGTGTATCAAGTCAGTAAACTACATGATATGG
Found at i:49865043 original size:42 final size:42
Alignment explanation
Indices: 49864984--49865066 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
49864974 GGCACATGGT
*
49864984 CTACGACACGGCCGTGTGTATC-AAGTCAGAGAGTTACACGGC
1 CTACGACAAGGCCGTGTG-ATCTAAGTCAGAGAGTTACACGGC
* *
49865026 CTACGACAAGGTCGTGTGATCTAAGTCAGTGAGTTACACGG
1 CTACGACAAGGCCGTGTGATCTAAGTCAGAGAGTTACACGG
49865067 TTTAAGACAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (42 bp):
CTACGACAAGGCCGTGTGATCTAAGTCAGAGAGTTACACGGC
Found at i:49865851 original size:358 final size:358
Alignment explanation
Indices: 49865188--49865899 Score: 1158
Period size: 358 Copynumber: 2.0 Consensus size: 358
49865178 TTTCAATTTT
* * *
49865188 TCCTTAGATTTTTTGAATTATTTCAAACTAGTCTCGTTTTGATCCCGAAATATTTTTAGGGCCTC
1 TCCTTAGATTTTCTGAATTATTTCAAACTAGTCCCGTTTTGATCCCGAAATATTTTAAGGGCCTC
* * *
49865253 GAAAATTTAATTTAAGGCCTAAATGTTTATGTTTGTTGGATTTGTATGAGGTTTAAATAATTAAT
66 GAAAATTTAATTTAAGGCCCAAATATGTATGTTTGTTGGATTTGTATGAGGTTTAAATAATTAAT
**
49865318 ATTGAATAGCATTATTAAACTATTTAAATGTTAATTGTTCTAATTTTTACGGTAATGCTCTGTAA
131 ATTGAATAGCATTATTAAACTATTTAAATGTTAATTGTTCTAATTTTTACGGTAATGCTCCATAA
* * *
49865383 CCCTAGACCGGCGACGGAAACGGGTTAGGGGTGTTATATTAGGTCGACCTTTTTTAGCCACTGCT
196 CCCTAGACCGGCAACGGAAACGGGTTAGGGGTGTTACATTAGGTCGACCTCTTTTAGCCACTGCT
* *
49865448 AGAACTATTATTGATATGGGTACTGGTGAACTTGTGCTTGTGTAGGTGATGAAAAGATTACTCTT
261 AGAACTATTATTGATATAGGTACTGGTGAACTTGTGCTTGTGTAGGTGATAAAAAGATTACTCTT
49865513 CAAGCACATGATTTTGTGAGAGTCCCTAGAGAA
326 CAAGCACATGATTTTGTGAGAGTCCCTAGAGAA
* *
49865546 TCCTTAGATTTTCTGAATTATTTCAAATTAGTCCCGTTTTGATCTC-AAACTATTTTAAGGGCCT
1 TCCTTAGATTTTCTGAATTATTTCAAACTAGTCCCGTTTTGATCCCGAAA-TATTTTAAGGGCCT
49865610 CGAAAATTTAATTTAAGGCCCAAATATGTATGTTTGTTGGATTTGTATGAGGTTTAAATAATTAA
65 CGAAAATTTAATTTAAGGCCCAAATATGTATGTTTGTTGGATTTGTATGAGGTTTAAATAATTAA
* * * *
49865675 TGTTGAATAGCATTATTAAATTGTTTAGATGTTAATTGTTCTAATTTTTACGGTAATGCTCCATA
130 TATTGAATAGCATTATTAAACTATTTAAATGTTAATTGTTCTAATTTTTACGGTAATGCTCCATA
** *
49865740 ACCCTAGACTTGCAACGGAAACTGGTTAGGGGTGTTACATTAGGTCGACC-CTTTTAGCCACTGC
195 ACCCTAGACCGGCAACGGAAACGGGTTAGGGGTGTTACATTAGGTCGACCTCTTTTAGCCACTGC
* * *
49865804 TAGAATTGTTATTGATATAGGTACTGGTGAACTTGTGCTTCGTGTAGGTGATAAAAATATTACTC
260 TAGAACTATTATTGATATAGGTACTGGTGAACTTGTGCTT-GTGTAGGTGATAAAAAGATTACTC
*
49865869 TTCAAGCACGTGATTTTGTGAGAGTCCCTAG
324 TTCAAGCACATGATTTTGTGAGAGTCCCTAG
49865900 TCAGTGAGAT
Statistics
Matches: 326, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
357 53 0.16
358 273 0.84
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (358 bp):
TCCTTAGATTTTCTGAATTATTTCAAACTAGTCCCGTTTTGATCCCGAAATATTTTAAGGGCCTC
GAAAATTTAATTTAAGGCCCAAATATGTATGTTTGTTGGATTTGTATGAGGTTTAAATAATTAAT
ATTGAATAGCATTATTAAACTATTTAAATGTTAATTGTTCTAATTTTTACGGTAATGCTCCATAA
CCCTAGACCGGCAACGGAAACGGGTTAGGGGTGTTACATTAGGTCGACCTCTTTTAGCCACTGCT
AGAACTATTATTGATATAGGTACTGGTGAACTTGTGCTTGTGTAGGTGATAAAAAGATTACTCTT
CAAGCACATGATTTTGTGAGAGTCCCTAGAGAA
Found at i:49867076 original size:23 final size:23
Alignment explanation
Indices: 49867027--49867076 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
49867017 CCATGTCTTT
49867027 TTTTTTCCTTTTTAAATCTATT-
1 TTTTTTCCTTTTTAAATCTATTC
* * *
49867049 TTTTTTTCTTTTCTTAATTTATTC
1 TTTTTTCCTTTT-TAAATCTATTC
49867073 TTTT
1 TTTT
49867077 ATTTCATTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTCCTTTTTAAATCTATTC
Found at i:49867125 original size:17 final size:15
Alignment explanation
Indices: 49867103--49867144 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 15
49867093 AATCATATTG
49867103 ATTTTATTTAGTTTTAT
1 ATTTTATTTA--TTTAT
49867120 ATTTTATTTATTTAT
1 ATTTTATTTATTTAT
49867135 ATTTCTATTT
1 ATTT-TATTT
49867145 CTATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.38
16 5 0.21
17 10 0.42
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
ATTTTATTTATTTAT
Found at i:49867129 original size:21 final size:22
Alignment explanation
Indices: 49867105--49867159 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
49867095 TCATATTGAT
49867105 TTTATTTAGTTTTATATTT-TA
1 TTTATTTAGTTTTATATTTCTA
*
49867126 TTTATTTA-TATTTCTATTTCTA
1 TTTATTTAGT-TTTATATTTCTA
*
49867148 TTT-TTTTGTTTT
1 TTTATTTAGTTTT
49867160 TGTTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 22 0.76
22 6 0.21
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTATTTAGTTTTATATTTCTA
Found at i:49867165 original size:5 final size:6
Alignment explanation
Indices: 49867150--49867234 Score: 80
Period size: 6 Copynumber: 13.7 Consensus size: 6
49867140 TATTTCTATT
* * * *
49867150 TTTTTG TTTTTG TTTTTA TTTTTA TTTATG TTTTTCTG TTTTTC TTCTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTT-TG TTTTTG TT-TTTG
* * *
49867201 TTTTTG TTTTTG CTTTTG TTTTTA TTTTTA TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTT
49867235 ATTATGCATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
6 53 0.79
7 12 0.18
8 2 0.03
ACGTcount: A:0.06, C:0.05, G:0.09, T:0.80
Consensus pattern (6 bp):
TTTTTG
Found at i:49876834 original size:14 final size:14
Alignment explanation
Indices: 49876815--49876851 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
49876805 GTTTTTGGGT
*
49876815 TTTAGGATTTAGTG
1 TTTAGGATTTAGGG
*
49876829 TTTAGGGTTTAGGG
1 TTTAGGATTTAGGG
49876843 TTTAGGATT
1 TTTAGGATT
49876852 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:49878568 original size:9 final size:9
Alignment explanation
Indices: 49878554--49878586 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
49878544 TTAAGAAATA
49878554 TAAAATATC
1 TAAAATATC
49878563 TAAAAT-TC
1 TAAAATATC
49878571 TTAAAATATC
1 -TAAAATATC
49878581 TAAAAT
1 TAAAAT
49878587 TCGGAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAATATC
Found at i:49878577 original size:18 final size:18
Alignment explanation
Indices: 49878554--49878588 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
49878544 TTAAGAAATA
49878554 TAAAATATCTAAAATTCT
1 TAAAATATCTAAAATTCT
49878572 TAAAATATCTAAAATTC
1 TAAAATATCTAAAATTC
49878589 GGAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATATCTAAAATTCT
Found at i:49881816 original size:25 final size:25
Alignment explanation
Indices: 49881782--49881861 Score: 160
Period size: 25 Copynumber: 3.2 Consensus size: 25
49881772 TTGAATGATA
49881782 AAGAATGAATTCCCATGACTCCTTG
1 AAGAATGAATTCCCATGACTCCTTG
49881807 AAGAATGAATTCCCATGACTCCTTG
1 AAGAATGAATTCCCATGACTCCTTG
49881832 AAGAATGAATTCCCATGACTCCTTG
1 AAGAATGAATTCCCATGACTCCTTG
49881857 AAGAA
1 AAGAA
49881862 AATTGAGAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (25 bp):
AAGAATGAATTCCCATGACTCCTTG
Found at i:49885348 original size:18 final size:18
Alignment explanation
Indices: 49885310--49885380 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 18
49885300 AAATCGGGAT
49885310 AATGATATTGAAATGGAA
1 AATGATATTGAAATGGAA
* *
49885328 AATTATATTGAAGT-GACA
1 AATGATATTGAAATGGA-A
*
49885346 AATGATA-TGGAAT-G-A
1 AATGATATTGAAATGGAA
*
49885361 AATGAAATGTGAAATGGAA
1 AATGATAT-TGAAATGGAA
49885380 A
1 A
49885381 TCAAAATGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.17
17 12 0.29
18 20 0.49
19 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.23, T:0.27
Consensus pattern (18 bp):
AATGATATTGAAATGGAA
Found at i:49886485 original size:30 final size:30
Alignment explanation
Indices: 49886451--49886510 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
49886441 CCTGGCACAT
* *
49886451 GGTCGTGTGCCATACATGGGCTTACGGCAC
1 GGTCGTGTGCCATACACGAGCTTACGGCAC
*
49886481 GGTCGTGTGCCATACACGAGCTTATGGCAC
1 GGTCGTGTGCCATACACGAGCTTACGGCAC
49886511 AACCGTTTAG
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:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (30 bp):
GGTCGTGTGCCATACACGAGCTTACGGCAC
Found at i:49887589 original size:13 final size:13
Alignment explanation
Indices: 49887571--49887595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49887561 TCCATTGGCT
49887571 TTTCTAATAAAGG
1 TTTCTAATAAAGG
49887584 TTTCTAATAAAG
1 TTTCTAATAAAG
49887596 CAACTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TTTCTAATAAAGG
Found at i:49887983 original size:21 final size:21
Alignment explanation
Indices: 49887959--49888004 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
49887949 ATGCATGAAT
*
49887959 TTAATTA-TTTGAAATTTACAA
1 TTAATTATTTTAAAATTT-CAA
49887980 TTAATTATTTTAAAATTTCAA
1 TTAATTATTTTAAAATTTCAA
49888001 TTAA
1 TTAA
49888005 CAAATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTATTTTAAAATTTCAA
Found at i:49892762 original size:34 final size:34
Alignment explanation
Indices: 49892723--49892842 Score: 154
Period size: 34 Copynumber: 3.5 Consensus size: 34
49892713 ACACGATTAA
* * *
49892723 CCATCCACCACACTAAATGCTCGTATGAGCTAAC
1 CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
** *
49892757 CCATCC-GACACATTAAATGCTCGTACGTA-CTAAT
1 CCATCCAG-CACACCAAATGCTCGTATG-AGCTAAT
49892791 CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
49892825 CCATCCAGCACACCAAAT
1 CCATCCAGCACACCAAAT
49892843 AACACTATAA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
33 1 0.01
34 72 0.96
35 2 0.03
ACGTcount: A:0.33, C:0.34, G:0.12, T:0.21
Consensus pattern (34 bp):
CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
Found at i:49900419 original size:11 final size:11
Alignment explanation
Indices: 49900388--49900431 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
49900378 AATTATTAAC
49900388 ATATTGAATTTT
1 ATATT-AATTTT
49900400 AT-TTAATTTT
1 ATATTAATTTT
*
49900410 ATAATAATTTT
1 ATATTAATTTT
*
49900421 TTATTAATTTT
1 ATATTAATTTT
49900432 GATTTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 8 0.29
11 18 0.64
12 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:49908712 original size:25 final size:26
Alignment explanation
Indices: 49908659--49908712 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
49908649 TTCTCCTGAA
* *
49908659 TTTCAATTTTATTTAATTATTTAATT
1 TTTCAATTTTATTGAATTAGTTAATT
49908685 TTTCAA-TTTATTGAATT-GTTAATAT
1 TTTCAATTTTATTGAATTAGTTAAT-T
49908710 TTT
1 TTT
49908713 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTAGTTAATT
Found at i:49914780 original size:16 final size:16
Alignment explanation
Indices: 49914759--49914797 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
49914749 TGTTTCGATA
*
49914759 GTTTGATAGTATGAAT
1 GTTTGATAGTATAAAT
49914775 GTTTGATAGTATAAAT
1 GTTTGATAGTATAAAT
49914791 GTTTGAT
1 GTTTGAT
49914798 TGAGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (16 bp):
GTTTGATAGTATAAAT
Found at i:49921933 original size:9 final size:9
Alignment explanation
Indices: 49921921--49921974 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
49921911 TTTTTACAAC
49921921 TTTTTAATA
1 TTTTTAATA
49921930 TTTTTAATAAA
1 TTTTTAAT--A
*
49921941 TTTTAAATA
1 TTTTTAATA
*
49921950 TTTTAAATA
1 TTTTTAATA
49921959 TTTTATAAT-
1 TTTT-TAATA
49921968 TTTTTAA
1 TTTTTAA
49921975 GTTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 3 0.08
9 26 0.65
10 3 0.08
11 8 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTAATA
Found at i:49921944 original size:20 final size:19
Alignment explanation
Indices: 49921910--49921974 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
49921900 TTTTAAAAAC
* *
49921910 ATTTTTACAACTTTTTAAT
1 ATTTTTAAAAATTTTTAAT
*
49921929 ATTTTTAATAAATTTTAAAT
1 ATTTTTAA-AAATTTTTAAT
*
49921949 A-TTTTAAATATTTTATAAT
1 ATTTTTAAAAATTTT-TAAT
49921968 -TTTTTAA
1 ATTTTTAA
49921975 GTTTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.16
19 22 0.58
20 10 0.26
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTTAAAAATTTTTAAT
Found at i:49922064 original size:19 final size:19
Alignment explanation
Indices: 49922040--49922101 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 19
49922030 TTGTAATTTG
49922040 TATTTTTGT-AATTTTTATA
1 TATTTTT-TAAATTTTTATA
*
49922059 TATTTTTTAAGATTTTAGATA
1 TATTTTTTAA-ATTTT-TATA
*
49922080 TATTTTTCTGAATTTTT-TA
1 TATTTTT-TAAATTTTTATA
49922099 TAT
1 TAT
49922102 AATTGTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.36
20 5 0.14
21 15 0.42
22 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (19 bp):
TATTTTTTAAATTTTTATA
Found at i:49922101 original size:21 final size:21
Alignment explanation
Indices: 49922051--49922102 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
49922041 ATTTTTGTAA
49922051 TTTTTATATATTTTTTAAGAT
1 TTTTTATATATTTTTTAAGAT
** *
49922072 TTTAGATATATTTTTCTGA-AT
1 TTTTTATATATTTTT-TAAGAT
49922093 TTTTTATATA
1 TTTTTATATA
49922103 ATTGTTCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (21 bp):
TTTTTATATATTTTTTAAGAT
Found at i:49927694 original size:5 final size:5
Alignment explanation
Indices: 49927684--49927711 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
49927674 TTTTCACCCA
49927684 AAACC AAACC AAACC AAACC AAACC AAA
1 AAACC AAACC AAACC AAACC AAACC AAA
49927712 ACCTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:49932860 original size:6 final size:6
Alignment explanation
Indices: 49932849--49932876 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
49932839 NNNAAAGAGA
49932849 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
49932877 TATTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:49934109 original size:36 final size:37
Alignment explanation
Indices: 49934057--49934126 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
49934047 TTATATATGT
* *
49934057 ATTATTATTTATTAGCATGATTATTAT-TTTATTCTC
1 ATTATCATTTACTAGCATGATTATTATATTTATTCTC
* *
49934093 ATTATCATTTACTAGCATGGTTATTTTATTTATT
1 ATTATCATTTACTAGCATGATTATTATATTTATT
49934127 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 23 0.79
37 6 0.21
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (37 bp):
ATTATCATTTACTAGCATGATTATTATATTTATTCTC
Found at i:49939822 original size:17 final size:17
Alignment explanation
Indices: 49939800--49939836 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49939790 CCAAGGCGCA
49939800 CAACCAGCATACCGAAT
1 CAACCAGCATACCGAAT
* *
49939817 CAACCATCATACTGAAT
1 CAACCAGCATACCGAAT
49939834 CAA
1 CAA
49939837 ATCTTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.32, G:0.08, T:0.16
Consensus pattern (17 bp):
CAACCAGCATACCGAAT
Found at i:49941454 original size:41 final size:41
Alignment explanation
Indices: 49941397--49941642 Score: 242
Period size: 41 Copynumber: 5.9 Consensus size: 41
49941387 GCGTTTACAG
* * *
49941397 AAACAAATGCCTCTAAAGGTTATGTTCTTTAGCGGCGCTAC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTAC
* * * *
49941438 AAAAAAAAGCCGCTAAAGGTTATGTTCTTTAGCGGCGCTTC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTAC
* *
49941479 AAAAAAACGCCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTAC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGG--C-GCTAC
* ** **
49941523 -AACAAACGCCGCGAAAGAACATGACCTTTAGCGGCGCATAC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TAC
* * * * *
49941564 CAACAAATGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TAC
**
49941606 TCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
1 -AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
49941643 AATTTTTCCA
Statistics
Matches: 172, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
40 2 0.01
41 73 0.42
42 32 0.19
43 61 0.35
44 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (41 bp):
AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTAC
Found at i:49941637 original size:85 final size:83
Alignment explanation
Indices: 49941397--49941642 Score: 260
Period size: 85 Copynumber: 2.9 Consensus size: 83
49941387 GCGTTTACAG
* * * * * *
49941397 AAACAAATGCCTCTAAAGGTTATGTTCTTTAGCGGCGCTAC-AAAAAAAAGCCGCTAAAGGTTAT
1 AAACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTACTCAACAAACGCCGCTAAAGGTCAT
*
49941461 GTTCTTTAGCGGCGCTTC
66 GTTCTTTAGCGGCGCTAC
* * * * * * **
49941479 AAAAAAACGCCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTACAACAAACGCCGCGAAAGAACA
1 AAACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTACT-CAACAAACGCCGCTAAAGGTCA
**
49941544 TGACCTTTAGCGGCGCATAC
65 TGTTCTTTAGCGGCGC-TAC
* * * * *
49941564 CAACAAATGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTCTCCACAAACGCCGCTAAAGGTCA
1 AAACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TACTCAACAAACGCCGCTAAAGGTCA
49941629 TGTTCTTTAGCGGC
65 TGTTCTTTAGCGGC
49941643 AATTTTTCCA
Statistics
Matches: 129, Mismatches: 31, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
82 34 0.26
84 29 0.22
85 63 0.49
86 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (83 bp):
AAACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTACTCAACAAACGCCGCTAAAGGTCAT
GTTCTTTAGCGGCGCTAC
Found at i:49941639 original size:128 final size:125
Alignment explanation
Indices: 49941423--49941688 Score: 336
Period size: 128 Copynumber: 2.1 Consensus size: 125
49941413 AGGTTATGTT
* * *
49941423 CTTTAGCGGCGCTACAAAAAAAAGCCGCTAAAGGTTATGTTCTTTAGCGGCGCTTCAAAAAAACG
1 CTTTAGCGGCGCTACAAAAAAAAGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTCAAAAAAACG
*
49941488 CCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTACAACAAACGCCGCGAA-AGAACATGAC
66 CCGCAAAAGGTCATGTTCTTTAGCGGCAATGCTACAACAAACGCCGC-AATAGAACATGAC
* * * ** *
49941548 CTTTAGCGGCGCATACCAACAAATGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTCTCCACAA
1 CTTTAGCGGCGC-TACAAAAAAAAGCCGCTAAAGCTCATGTTCTTTAGCAGCGC-TTC-AAAAAA
* ** * * *
49941613 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTTCCACAAACGCTGCAATAGAACATGAC
63 ACGCCGCAAAAGGTCATGTTCTTTAGCGGCAATGCTACAACAAACGCCGCAATAGAACATGAC
*
49941676 TTTTAGCGGCGCT
1 CTTTAGCGGCGCT
49941689 TTTATAAAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
125 12 0.10
126 35 0.29
127 6 0.05
128 67 0.56
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (125 bp):
CTTTAGCGGCGCTACAAAAAAAAGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTCAAAAAAACG
CCGCAAAAGGTCATGTTCTTTAGCGGCAATGCTACAACAAACGCCGCAATAGAACATGAC
Found at i:49941653 original size:43 final size:43
Alignment explanation
Indices: 49941446--49941659 Score: 152
Period size: 43 Copynumber: 5.0 Consensus size: 43
49941436 ACAAAAAAAA
* ** * * *
49941446 GCCGCTAAAGGTTATGTTCTTTAGCGGC-GCTTCA-AAAAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTACCACAAAC
* * ** *
49941487 GCCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTACAACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTACCACAAAC
* ** ** * *
49941530 GCCGCGAAAGAACATGACCTTTAGCGGCGCA---TACCAACAAAT
1 GCCGCTAAAGGTCATGTTCTTTAGCGGC-AATTTTACC-ACAAAC
* * **
49941572 GCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTCT-CCACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTT-TACCACAAAC
*
49941615 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTTCCACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTACCACAAAC
49941658 GC
1 GC
49941660 TGCAATAGAA
Statistics
Matches: 134, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
41 29 0.22
42 29 0.22
43 73 0.54
44 2 0.01
45 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTACCACAAAC
Found at i:49942099 original size:21 final size:21
Alignment explanation
Indices: 49942075--49942125 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
49942065 TTCTTTTGAA
* *
49942075 CCTCTGCTTCTCTCGTTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
49942096 CCTCTTCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
49942117 CCTCTGCTT
1 CCTCTGCTT
49942126 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.45, G:0.16, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:49944754 original size:645 final size:645
Alignment explanation
Indices: 49943524--49944813 Score: 2580
Period size: 645 Copynumber: 2.0 Consensus size: 645
49943514 GTCTGTTGTT
49943524 CATTATTTGTTTCTGCCGAGTTTGGAGCATTTTGAACAATGCTTAGATCTCGCATTTTTCTTCTA
1 CATTATTTGTTTCTGCCGAGTTTGGAGCATTTTGAACAATGCTTAGATCTCGCATTTTTCTTCTA
49943589 GGCATTTTATCTACAATACACATTAAATAGTTGAAAACTTAGTAACTAATTACAACAATAACAAC
66 GGCATTTTATCTACAATACACATTAAATAGTTGAAAACTTAGTAACTAATTACAACAATAACAAC
49943654 ACATATAAAATAGTTGAAATATATAATAAGACCAAGATTTAAATTATGATATTACATATAATTAA
131 ACATATAAAATAGTTGAAATATATAATAAGACCAAGATTTAAATTATGATATTACATATAATTAA
49943719 ACAATCGTAAAATCTTACTATATCATTATTCGTAAATATCTTCATCCGTATCCTGACGAACCCAT
196 ACAATCGTAAAATCTTACTATATCATTATTCGTAAATATCTTCATCCGTATCCTGACGAACCCAT
49943784 TGAAATTGTGTACTACTACTAGGGATATTATCGTTTAAGTTTTGTTCTGGAAAGGACAAAGTTTC
261 TGAAATTGTGTACTACTACTAGGGATATTATCGTTTAAGTTTTGTTCTGGAAAGGACAAAGTTTC
49943849 TGATCTGTCGTCGATGTTATCTCTACTTCCACTGCCCATGTCAAACAAGTCTCTAGGGATGTTAC
326 TGATCTGTCGTCGATGTTATCTCTACTTCCACTGCCCATGTCAAACAAGTCTCTAGGGATGTTAC
49943914 GGAGTACAACGTACCAACCCTCATCAGTTGGATCTTTTGAGTAAAAAACTTGTTTGACTTGAGAT
391 GGAGTACAACGTACCAACCCTCATCAGTTGGATCTTTTGAGTAAAAAACTTGTTTGACTTGAGAT
49943979 GAGAATACATACCGCTCATCTATCAGTTGTTGTCCTGTGTGAATCAATCGAGTGAAGTTCACCAT
456 GAGAATACATACCGCTCATCTATCAGTTGTTGTCCTGTGTGAATCAATCGAGTGAAGTTCACCAT
49944044 TGTAAAACCAAATTGATCTTGCTTTATTCCACGAGCATTATTAACATCGGCCTAATCAGCTAGAA
521 TGTAAAACCAAATTGATCTTGCTTTATTCCACGAGCATTATTAACATCGGCCTAATCAGCTAGAA
49944109 ATAAGACAACTTTCCATTTGTCGTAGTAATCCAACTCAATTATGTCAGTAAGAAATCCCA
586 ATAAGACAACTTTCCATTTGTCGTAGTAATCCAACTCAATTATGTCAGTAAGAAATCCCA
49944169 CATTATTTGTTTCTGCCGAGTTTGGAGCATTTTGAACAATGCTTAGATCTCGCATTTTTCTTCTA
1 CATTATTTGTTTCTGCCGAGTTTGGAGCATTTTGAACAATGCTTAGATCTCGCATTTTTCTTCTA
49944234 GGCATTTTATCTACAATACACATTAAATAGTTGAAAACTTAGTAACTAATTACAACAATAACAAC
66 GGCATTTTATCTACAATACACATTAAATAGTTGAAAACTTAGTAACTAATTACAACAATAACAAC
49944299 ACATATAAAATAGTTGAAATATATAATAAGACCAAGATTTAAATTATGATATTACATATAATTAA
131 ACATATAAAATAGTTGAAATATATAATAAGACCAAGATTTAAATTATGATATTACATATAATTAA
49944364 ACAATCGTAAAATCTTACTATATCATTATTCGTAAATATCTTCATCCGTATCCTGACGAACCCAT
196 ACAATCGTAAAATCTTACTATATCATTATTCGTAAATATCTTCATCCGTATCCTGACGAACCCAT
49944429 TGAAATTGTGTACTACTACTAGGGATATTATCGTTTAAGTTTTGTTCTGGAAAGGACAAAGTTTC
261 TGAAATTGTGTACTACTACTAGGGATATTATCGTTTAAGTTTTGTTCTGGAAAGGACAAAGTTTC
49944494 TGATCTGTCGTCGATGTTATCTCTACTTCCACTGCCCATGTCAAACAAGTCTCTAGGGATGTTAC
326 TGATCTGTCGTCGATGTTATCTCTACTTCCACTGCCCATGTCAAACAAGTCTCTAGGGATGTTAC
49944559 GGAGTACAACGTACCAACCCTCATCAGTTGGATCTTTTGAGTAAAAAACTTGTTTGACTTGAGAT
391 GGAGTACAACGTACCAACCCTCATCAGTTGGATCTTTTGAGTAAAAAACTTGTTTGACTTGAGAT
49944624 GAGAATACATACCGCTCATCTATCAGTTGTTGTCCTGTGTGAATCAATCGAGTGAAGTTCACCAT
456 GAGAATACATACCGCTCATCTATCAGTTGTTGTCCTGTGTGAATCAATCGAGTGAAGTTCACCAT
49944689 TGTAAAACCAAATTGATCTTGCTTTATTCCACGAGCATTATTAACATCGGCCTAATCAGCTAGAA
521 TGTAAAACCAAATTGATCTTGCTTTATTCCACGAGCATTATTAACATCGGCCTAATCAGCTAGAA
49944754 ATAAGACAACTTTCCATTTGTCGTAGTAATCCAACTCAATTATGTCAGTAAGAAATCCCA
586 ATAAGACAACTTTCCATTTGTCGTAGTAATCCAACTCAATTATGTCAGTAAGAAATCCCA
49944814 AATATTCCAC
Statistics
Matches: 645, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
645 645 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (645 bp):
CATTATTTGTTTCTGCCGAGTTTGGAGCATTTTGAACAATGCTTAGATCTCGCATTTTTCTTCTA
GGCATTTTATCTACAATACACATTAAATAGTTGAAAACTTAGTAACTAATTACAACAATAACAAC
ACATATAAAATAGTTGAAATATATAATAAGACCAAGATTTAAATTATGATATTACATATAATTAA
ACAATCGTAAAATCTTACTATATCATTATTCGTAAATATCTTCATCCGTATCCTGACGAACCCAT
TGAAATTGTGTACTACTACTAGGGATATTATCGTTTAAGTTTTGTTCTGGAAAGGACAAAGTTTC
TGATCTGTCGTCGATGTTATCTCTACTTCCACTGCCCATGTCAAACAAGTCTCTAGGGATGTTAC
GGAGTACAACGTACCAACCCTCATCAGTTGGATCTTTTGAGTAAAAAACTTGTTTGACTTGAGAT
GAGAATACATACCGCTCATCTATCAGTTGTTGTCCTGTGTGAATCAATCGAGTGAAGTTCACCAT
TGTAAAACCAAATTGATCTTGCTTTATTCCACGAGCATTATTAACATCGGCCTAATCAGCTAGAA
ATAAGACAACTTTCCATTTGTCGTAGTAATCCAACTCAATTATGTCAGTAAGAAATCCCA
Found at i:49948336 original size:20 final size:21
Alignment explanation
Indices: 49948313--49948410 Score: 102
Period size: 20 Copynumber: 5.0 Consensus size: 21
49948303 TAGAAATTTT
49948313 ATCTTAATATTATATAA-TTA
1 ATCTTAATATTATATAAGTTA
49948333 ATCTTAATATTATATAAGTT-
1 ATCTTAATATTATATAAGTTA
* * * *
49948353 AT-GT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAAGTTA
49948370 ATCTTAATATTATATAAG-TA
1 ATCTTAATATTATATAAGTTA
*
49948390 ATCTTAATATCATATAAGTTA
1 ATCTTAATATTATATAAGTTA
49948411 TATTAATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
16 4 0.06
17 7 0.11
18 2 0.03
19 2 0.03
20 42 0.67
21 6 0.10
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
ATCTTAATATTATATAAGTTA
Found at i:49948340 original size:57 final size:57
Alignment explanation
Indices: 49948279--49948398 Score: 195
Period size: 57 Copynumber: 2.1 Consensus size: 57
49948269 AAATTAGAAA
* *
49948279 TTAATAGTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAATTAATC
1 TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
* * *
49948336 TTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
1 TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
49948393 TTAATA
1 TTAATA
49948399 TCATATAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (57 bp):
TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
Found at i:49948359 original size:25 final size:20
Alignment explanation
Indices: 49948313--49948429 Score: 93
Period size: 20 Copynumber: 6.0 Consensus size: 20
49948303 TAGAAATTTT
49948313 ATCTTAATATTATATAATTA
1 ATCTTAATATTATATAATTA
49948333 ATCTTAATATTATATAAGTT-
1 ATCTTAATATTATATAA-TTA
* * *
49948353 AT-GT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAA-TTA
*
49948370 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAATTA
*
49948390 ATCTTAATATCATATAAGTT-
1 ATCTTAATATTATATAA-TTA
* * *
49948410 ATATTAATTTTATGTAATTA
1 ATCTTAATATTATATAATTA
49948430 GAAATTGATG
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
16 4 0.05
17 7 0.09
18 2 0.03
19 4 0.05
20 54 0.71
21 5 0.07
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (20 bp):
ATCTTAATATTATATAATTA
Found at i:49948399 original size:57 final size:57
Alignment explanation
Indices: 49948292--49948411 Score: 222
Period size: 57 Copynumber: 2.1 Consensus size: 57
49948282 ATAGTAAACG
* *
49948292 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAATTAATCTTAATATTATATA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
49948349 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
49948406 AGTTAT
1 AGTTAT
49948412 ATTAATTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (57 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
Found at i:49949273 original size:13 final size:13
Alignment explanation
Indices: 49949255--49949289 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
49949245 CTAAATAAAC
49949255 TTCATTCAGAAAA
1 TTCATTCAGAAAA
49949268 TTCATTCAGAAAA
1 TTCATTCAGAAAA
49949281 TTCATTCAG
1 TTCATTCAG
49949290 CAATTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (13 bp):
TTCATTCAGAAAA
Found at i:49950637 original size:15 final size:16
Alignment explanation
Indices: 49950607--49950642 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
49950597 ATTTTTTTAA
*
49950607 ATATTAATTTATATTT
1 ATATTAATTTACATTT
49950623 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
49950638 ATATT
1 ATATT
49950643 CTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:49950797 original size:21 final size:21
Alignment explanation
Indices: 49950768--49950812 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49950758 TGTAAGCCGT
* *
49950768 AACTGTAAATCATAAACCCCA
1 AACTATAAACCATAAACCCCA
*
49950789 AACTATAAACCCTAAACCCCA
1 AACTATAAACCATAAACCCCA
49950810 AAC
1 AAC
49950813 CGTAAACCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.33, G:0.02, T:0.16
Consensus pattern (21 bp):
AACTATAAACCATAAACCCCA
Found at i:49950818 original size:21 final size:21
Alignment explanation
Indices: 49950780--49950842 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
49950770 CTGTAAATCA
*
49950780 TAAACCCCAAACTATAAACCC
1 TAAACCCCAAACCATAAACCC
* *
49950801 TAAACCCCAAACCGTAAACCT
1 TAAACCCCAAACCATAAACCC
* * *
49950822 TAAATCCTAAACCTTAAACCC
1 TAAACCCCAAACCATAAACCC
49950843 ATCAATTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (21 bp):
TAAACCCCAAACCATAAACCC
Found at i:49950819 original size:7 final size:7
Alignment explanation
Indices: 49950780--49950842 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
49950770 CTGTAAATCA
49950780 TAAACCC
1 TAAACCC
* **
49950787 CAAACTA
1 TAAACCC
49950794 TAAACCC
1 TAAACCC
49950801 TAAACCC
1 TAAACCC
* *
49950808 CAAACCG
1 TAAACCC
*
49950815 TAAACCT
1 TAAACCC
*
49950822 TAAATCC
1 TAAACCC
*
49950829 TAAACCT
1 TAAACCC
49950836 TAAACCC
1 TAAACCC
49950843 ATCAATTAAT
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:49950945 original size:21 final size:21
Alignment explanation
Indices: 49950921--49950996 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
49950911 ACTGTAAATC
49950921 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCATAAACA
*
49950942 TTAAACCCATAAACCACAAACA
1 TTAAACCC-TAAACCATAAACA
* * *
49950964 --ACAACCACCAAATCATAAACT
1 TTA-AACC-CTAAACCATAAACA
49950985 TTAAACCCTAAA
1 TTAAACCCTAAA
49950997 GTCTAAACCG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 25 0.57
22 17 0.39
23 1 0.02
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
TTAAACCCTAAACCATAAACA
Found at i:49950957 original size:22 final size:21
Alignment explanation
Indices: 49950921--49950963 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
49950911 ACTGTAAATC
*
49950921 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCACAAACA
49950942 TTAAACCCATAAACCACAAACA
1 TTAAACCC-TAAACCACAAACA
49950964 ACAACCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.16
Consensus pattern (21 bp):
TTAAACCCTAAACCACAAACA
Found at i:49951982 original size:227 final size:229
Alignment explanation
Indices: 49951704--49952172 Score: 649
Period size: 227 Copynumber: 2.1 Consensus size: 229
49951694 GCTGAAGACC
* *
49951704 AAACGCTGCG-CTTCGGTTAAGATATTTTACGGCGCTTTTTATATTGCGCCGCTAACACTGTGAT
1 AAACGCTGCGTTTTCGGTTAAGATATTTTACGGCGCTTTTTATATAGCGCCGCTAACACTGTGAT
* * **
49951768 TTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATGCCTGAAGACC-AAACGTTGCGTTTTG
66 TTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCGTTTTG
* * * *
49951832 GTTAAGATATTTTGAGATGCTTTTTATATAGCGCTGCTAATACTGTGCTTTTG-GGCG-TTTTTC
131 GTTAAGATATTTTGAGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTGC
**
49951895 ATAAGCGCCACTAATTCTGGTATACCTCAAGACAA
196 ATAAGCGCCACTAATTCTAATATACCTCAAG-CAA
* * * * *
49951930 AAACGCTGCGTTTTTGGTTAAGATATTTTTCGGCGCTTTTTTTATAGCGCCGCTAATACTGTGCT
1 AAACGCTGCGTTTTCGGTTAAGATATTTTACGGCGCTTTTTATATAGCGCCGCTAACACTGTGAT
* ** *
49951995 TTAGTGGCGTTTTTCGTAAGCGCCACTAATTCTGATATACCTCAAGACCAAAACGCAGCGTTTTG
66 TTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCGTTTTG
* * * *
49952060 GTTAAGATATTTTGCGGCGCTTTTTATATTGCGCCGCTAATACTGTTCTTTAGCGGCGCTTTTGC
131 GTTAAGATATTTTGAGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTGC
**
49952125 ATAAGCGCCACTAATTCTAATATACCTCAAGCTC
196 ATAAGCGCCACTAATTCTAATATACCTCAAGCAA
*
49952159 ATACGCTGCGTTTT
1 AAACGCTGCGTTTT
49952173 GTTTAACATT
Statistics
Matches: 211, Mismatches: 28, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
226 10 0.05
227 90 0.43
228 59 0.28
229 18 0.09
230 34 0.16
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (229 bp):
AAACGCTGCGTTTTCGGTTAAGATATTTTACGGCGCTTTTTATATAGCGCCGCTAACACTGTGAT
TTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCGTTTTG
GTTAAGATATTTTGAGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTGC
ATAAGCGCCACTAATTCTAATATACCTCAAGCAA
Found at i:49952048 original size:115 final size:113
Alignment explanation
Indices: 49951698--49952195 Score: 624
Period size: 114 Copynumber: 4.4 Consensus size: 113
49951688 TCTATAGCTG
* * * * *
49951698 AAGACCAAACGCTGCGCTTCGGTTAAGATATTTTACGGCGCTTTTTATATTGCGCCGCTAACACT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
* ** * * *
49951763 GTGATTTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATGCCTG
66 GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
* * ** *
49951811 AAGACCAAACGTTGCGTTTTGGTTAAGATATTTTGAGATGCTTTTTATATAGCGCTGCTAATACT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
* **
49951876 GTGCTTTTG-GGCGTTTTTCATAAGCGCCACTAATTCTGGTATACCTC
66 GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
* * *
49951923 AAGACAAAAACGCTGCGTTTTTGGTTAAGATATTTTTCGGCGCTTTTTTTATAGCGCCGCTAATA
1 AAGAC-CAAACGCTGCG-TTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATA
* * *
49951988 CTGTGCTTTAGTGGCGTTTTTCGTAAGCGCCACTAATTCTGATATACCTC
64 CTGTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
* *
49952038 AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTGCGCCGCTAATAC
1 AAGACC-AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATAC
* *
49952103 TGTTCTTTAGCGGCGCTTTTGCATAAGCGCCACTAATTCTAATATACCTC
65 TGTGCTTTAGCGGCG-TTTTTCATAAGCGCCACTAATTCTAATATACCTC
* * * *
49952153 AAG-CTCATACGCTGCGTTTTGTTTAACAT-TTTCTGCAGCGCTT
1 AAGAC-CAAACGCTGCGTTTTGGTTAAGATATTT-TGCGGCGCTT
49952196 ACAAATAAAC
Statistics
Matches: 333, Mismatches: 45, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
112 36 0.11
113 74 0.22
114 138 0.41
115 85 0.26
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (113 bp):
AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
Found at i:49955627 original size:43 final size:42
Alignment explanation
Indices: 49955561--49955832 Score: 264
Period size: 43 Copynumber: 6.4 Consensus size: 42
49955551 TTTTAAAAAT
* * *
49955561 AAACGCCGCTATAGACCATGACCTTTAGTAGTGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAG-AGCGCTTTTCCCAC
* * *
49955604 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTT-GCAC
1 AAACGCCGCTATAGATCAGGACCTTTAG-AGCGCTTTTCCCAC
* ** *
49955646 AAGCGCCATTATAGATC-GAGATCTTTAGAGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAG-GACCTTTAGA-GCGCTTTTCCCAC
* *
49955689 AAACGCCGCTATAGATC-GAGACCTTTAGTGACACTTTTCCCAC
1 AAACGCCGCTATAGATCAG-GACCTTTAGAG-CGCTTTTCCCAC
* * * *
49955732 AAACGTCGCTATAGATCATGACCTTTAGCGGTGCCTTTT-CCAC
1 AAACGCCGCTATAGATCAGGACCTTTAG-AGCG-CTTTTCCCAC
* * *
49955775 AAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGAG-CGCTTTTCCCAC
49955818 AAACGCCGCTATAGA
1 AAACGCCGCTATAGA
49955833 ACAAACCTTT
Statistics
Matches: 189, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 39 0.21
43 143 0.76
44 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAGGACCTTTAGAGCGCTTTTCCCAC
Found at i:49955672 original size:42 final size:43
Alignment explanation
Indices: 49955561--49955870 Score: 247
Period size: 43 Copynumber: 7.3 Consensus size: 43
49955551 TTTTAAAAAT
* * *
49955561 AAACGCCGCTATAGA-CCATGACCTTTAGTA-GTGCTTTTCCCAC
1 AAACGCCACTATAGATCGA-GACCTTTAG-AGGCGCTTTTCCCAC
* * * *
49955604 AAACGCCGCTAAAGATC-AGGACCTTTAGCGGCGCTTTT-GCAC
1 AAACGCCACTATAGATCGA-GACCTTTAGAGGCGCTTTTCCCAC
* * *
49955646 AAGCGCCATTATAGATCGAGATCTTTAGAGGCGCTTTTCCCAC
1 AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
* * * *
49955689 AAACGCCGCTATAGATCGAGACCTTTAGTGACACTTTTCCCAC
1 AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
* * * *
49955732 AAACGTCGCTATAGATC-ATGACCTTTAGCGGTGCCTTTT-CCAC
1 AAACGCCACTATAGATCGA-GACCTTTAGAGGCG-CTTTTCCCAC
* * * * *
49955775 AAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
* * * * * * * *
49955818 AAACGCCGCTATAGAAC-AAACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
49955860 AAACGCCACTA
1 AAACGCCACTA
49955871 AAAACATAAC
Statistics
Matches: 224, Mismatches: 35, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
42 70 0.31
43 147 0.66
44 7 0.03
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
Found at i:49955717 original size:128 final size:129
Alignment explanation
Indices: 49955561--49955872 Score: 362
Period size: 128 Copynumber: 2.4 Consensus size: 129
49955551 TTTTAAAAAT
**
49955561 AAACGCCGCTATAGACCATGACCTTTAGT-AGTGCTTTTCCCACAAACGCCGCTAAAGATCAGGA
1 AAACGCCGCTATAGACCATGACCTTTAGTGA-CACTTTTCCCACAAACGCCGCTAAAGATCAGGA
* * * * * *
49955625 CCTTTAGCGGCG-CTTTTGCACAAGCGCCATTATAGATCGAGATCTTTAGAGGCGCTTTTCCCAC
65 CCTTTAGCGGCGCCTTTTCCACAAACGCCACTATAGATCAAGACCTTTAGAGACGCTTTTCCCAC
* * * *
49955689 AAACGCCGCTATAGATCGA-GACCTTTAGTGACACTTTTCCCACAAACGTCGCTATAGATCATGA
1 AAACGCCGCTATAGA-CCATGACCTTTAGTGACACTTTTCCCACAAACGCCGCTAAAGATCAGGA
* * * *
49955753 CCTTTAGCGGTGCCTTTTCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTTTCCCAC
65 CCTTTAGCGGCGCCTTTTCCACAAACGCCACTATAGATCAAGACCTTTAGAGACGCTTTTCCCAC
* * * * * * * *
49955818 AAACGCCGCTATAGAACA-AACCTTTAGCGACGCTTCTCGCAAAAACGCCACTAAA
1 AAACGCCGCTATAGACCATGACCTTTAGTGACACTTTTCCCACAAACGCCGCTAAA
49955873 AACATAACAT
Statistics
Matches: 154, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
128 93 0.60
129 61 0.40
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (129 bp):
AAACGCCGCTATAGACCATGACCTTTAGTGACACTTTTCCCACAAACGCCGCTAAAGATCAGGAC
CTTTAGCGGCGCCTTTTCCACAAACGCCACTATAGATCAAGACCTTTAGAGACGCTTTTCCCAC
Found at i:49955784 original size:86 final size:84
Alignment explanation
Indices: 49955561--49955846 Score: 333
Period size: 86 Copynumber: 3.3 Consensus size: 84
49955551 TTTTAAAAAT
* ** *
49955561 AAACGCCGCTATAGACCATGACCTTTAGTAGTGCTTTTCCCACAAACGCCGCTAAAGATCAGGAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGATCA-GAC
* *
49955626 CTTTAGCGGCGCTTTT-GCAC
64 CTTTAGCGACGCTTTTCCCAC
* ** * * *
49955646 AAGCGCCATTATAGATCGAGATCTTTAGAGGCGCTTTTCCCACAAACGCCGCTATAGATCGAGAC
1 AAACGCCGCTATAGATC-AGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGATC-AGAC
* *
49955711 CTTTAGTGACACTTTTCCCAC
64 CTTTAGCGACGCTTTTCCCAC
* *
49955732 AAACGTCGCTATAGATCATGACCTTTAGCGGTGCCTTTT-CCACAAACGCCGCTATAGCTCAAGA
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGTG-CTTTTCCCACAAACGCCGCTATAGATC-AGA
49955796 CCTTTAGCGACGCTTTTCCCAC
63 CCTTTAGCGACGCTTTTCCCAC
* *
49955818 AAACGCCGCTATAGAACAAACCTTTAGCG
1 AAACGCCGCTATAGATCAGACCTTTAGCG
49955847 ACGCTTCTCG
Statistics
Matches: 169, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
85 76 0.45
86 88 0.52
87 5 0.03
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (84 bp):
AAACGCCGCTATAGATCAGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGATCAGACCT
TTAGCGACGCTTTTCCCAC
Found at i:49957141 original size:22 final size:22
Alignment explanation
Indices: 49957110--49957153 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49957100 TACACCAAAA
*
49957110 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
*
49957132 TAGGCCTTTAGCGGTGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
49957154 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:49957372 original size:44 final size:44
Alignment explanation
Indices: 49957276--49957421 Score: 240
Period size: 44 Copynumber: 3.3 Consensus size: 44
49957266 GCTTTAGTGG
* * * *
49957276 AAGCGCCGCTAAAGATCAGGGTCTTTAGTGGCG-TTTTTGCGAG
1 AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
*
49957319 AAGTGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
1 AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
49957363 AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
1 AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
49957407 AAGCGCCGCTAAAGA
1 AAGCGCCGCTAAAGA
49957422 CCCTAATCTT
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 29 0.30
44 67 0.70
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (44 bp):
AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
Found at i:49957432 original size:44 final size:43
Alignment explanation
Indices: 49957279--49957634 Score: 227
Period size: 43 Copynumber: 8.3 Consensus size: 43
49957269 TTAGTGGAAG
* ** * * * *
49957279 CGCCGCTAAAGATCAGGGTCTTTAGTGGCGTTTTTGCGAGAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGCGACAAA
* *** * *
49957322 TGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGACAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTTTGCGACAAA
*** * *
49957366 CGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGACAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTTTGCGACAAA
* * ** *
49957410 CGCCGCTAAAGACCCTAATCTTTAGCAGCGATTTTCCCTA-AAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTTTGCGACAAA
* * * *
49957453 CGCCG-TAAACGACCCTGATCTATAGCGGCG-CTTCGACCACAAA
1 CGCCGCTAAA-GACCCTGATCTTTAGCGGCGTTTTTG-CGACAAA
* * * * ** *
49957496 CGCCACTAAAGAACCTAATCTTTAGCGGCG-CTTCCCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGCGACAAA
* * *
49957538 CGCCGCTAAAGACCATGATCTTTAGGGGCGCTTTTTCCG-CAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTTTGCGACAAA
* * * * * *
49957581 CGCCGCGAAAGACCCTTATCTTTAGCGGCGCTTTTACCAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGCGACAAA
*
49957624 CGCCACTAAAG
1 CGCCGCTAAAG
49957635 GCCAACACCT
Statistics
Matches: 259, Mismatches: 46, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.01
42 43 0.17
43 120 0.46
44 93 0.36
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGCGACAAA
Found at i:49957569 original size:85 final size:84
Alignment explanation
Indices: 49957405--49957613 Score: 240
Period size: 85 Copynumber: 2.5 Consensus size: 84
49957395 GTTTTTTGCG
* * * * *
49957405 ACAAGCGCCGCTAAAGACCCTAATCTTTAGCAGCGATTTTCCCTAAAACGCCGTAAACGACCCTG
1 ACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCG--CTTCCCCAAAACGCCGTAAACGACCATG
49957470 ATCTATAGCGGCGCTTCGACC
64 ATCTATAGCGGCGCTTCGACC
* *
49957491 ACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTCCCCACAAACGCCGCTAAA-GACCATG
1 ACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCCCCA-AAACGCCG-TAAACGACCATG
* * ***
49957555 ATCTTTAGGGGCGCTTTTTCC
64 ATCTATAGCGGCGCTTCGACC
* * *
49957576 GCAAACGCCGCGAAAGACCCTTATCTTTAGCGGCGCTT
1 ACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTT
49957614 TTACCAAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
84 6 0.06
85 63 0.61
86 35 0.34
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (84 bp):
ACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCCCCAAAACGCCGTAAACGACCATGAT
CTATAGCGGCGCTTCGACC
Found at i:49957647 original size:128 final size:128
Alignment explanation
Indices: 49957405--49957653 Score: 295
Period size: 128 Copynumber: 1.9 Consensus size: 128
49957395 GTTTTTTGCG
* * * *
49957405 ACAAGCGCCGCTAAAGACCCTAATCTTTAGCAGCGATTTTCCCTAAAACGCCGTAAACGACCCTG
1 ACAAACGCCGCTAAAGACCATAATCTTTAGCAGCGATTTTCCCGAAAACGCCGGAAACGACCCTG
* * *
49957470 ATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTCCCC
66 ATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGCGCTTCCCC
* ** * * *
49957533 ACAAACGCCGCTAAAGACCATGATCTTTAGGGGCGCTTTTTCCGCAAACGCCGCGAAA-GACCCT
1 ACAAACGCCGCTAAAGACCATAATCTTTAGCAGCGATTTTCCCGAAAACGCCG-GAAACGACCCT
* * ** * *
49957597 TATCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAG-GCCAACACCTTTAGTGGCG
65 GATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAA-ACCTTTAGCGGCG
49957654 TTTTTTTGAA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
127 3 0.03
128 94 0.94
129 3 0.03
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.21
Consensus pattern (128 bp):
ACAAACGCCGCTAAAGACCATAATCTTTAGCAGCGATTTTCCCGAAAACGCCGGAAACGACCCTG
ATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGCGCTTCCCC
Found at i:49957658 original size:85 final size:85
Alignment explanation
Indices: 49957492--49957659 Score: 201
Period size: 86 Copynumber: 2.0 Consensus size: 85
49957482 GCTTCGACCA
* * * * ** *
49957492 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTCCCCACAAACGCCGCTAAAGACCATGAT
1 CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTCACCAAAAACGCCACTAAAGACCAACAC
49957557 CTTTAGGGGCGCTTTTTCCG
66 CTTTAGGGGCGCTTTTTCCG
* * * * *
49957577 CAAACGCCGCGAAAGACCCTTATCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAGGCCAACA
1 CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGC-TTCACCAAAAACGCCACTAAAGACCAACA
* *
49957642 CCTTTAGTGGCGTTTTTT
65 CCTTTAGGGGCGCTTTTT
49957660 TGAAAAGCGC
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
85 31 0.46
86 37 0.54
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTCACCAAAAACGCCACTAAAGACCAACAC
CTTTAGGGGCGCTTTTTCCG
Found at i:49958013 original size:21 final size:21
Alignment explanation
Indices: 49957984--49958041 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
49957974 TTTGACGCTG
49957984 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
49958005 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
49958026 CTCTGCTTCCCTCGCT
1 CTCTGCTTCCCTCGCT
49958042 ATAGTTTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.05, C:0.47, G:0.14, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:49958095 original size:21 final size:21
Alignment explanation
Indices: 49958052--49958096 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49958042 ATAGTTTGTA
* *
49958052 CTTCTCTCGCTGCCGCCTTTG
1 CTTCTCTCGCTGCCGCATCTG
*
49958073 CTTCTCTTGCTGCCGCATCTG
1 CTTCTCTCGCTGCCGCATCTG
49958094 CTT
1 CTT
49958097 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.40, G:0.18, T:0.40
Consensus pattern (21 bp):
CTTCTCTCGCTGCCGCATCTG
Found at i:49958157 original size:66 final size:66
Alignment explanation
Indices: 49958072--49958232 Score: 218
Period size: 66 Copynumber: 2.4 Consensus size: 66
49958062 TGCCGCCTTT
* *
49958072 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
49958135 TCA
64 TCA
* *
49958138 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
49958203 A
66 A
* * * *
49958204 GCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAG
49958233 TTGTGTAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 1 0.01
66 80 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:49966859 original size:9 final size:9
Alignment explanation
Indices: 49966841--49966968 Score: 70
Period size: 9 Copynumber: 13.8 Consensus size: 9
49966831 NTTAATTAAT
49966841 TAAGTTATG
1 TAAGTTATG
*
49966850 TAATTTATG
1 TAAGTTATG
*
49966859 TATAATATTAATG
1 --TAA-GTT-ATG
49966872 TAAGTTATG
1 TAAGTTATG
*
49966881 TAATTTATG
1 TAAGTTATG
*
49966890 TTTAATATTAATG
1 --TAA-GTT-ATG
49966903 TAAGTTATG
1 TAAGTTATG
49966912 TAAG-T-TG
1 TAAGTTATG
49966919 TAAGTTATG
1 TAAGTTATG
*
49966928 TAAGTTATA
1 TAAGTTATG
*
49966937 TATA-ATAT-
1 TA-AGTTATG
49966945 TAA-TTAAT-
1 TAAGTT-ATG
49966953 TAAGTTATG
1 TAAGTTATG
49966962 TAAGTTA
1 TAAGTTA
49966969 ACTATTTTAA
Statistics
Matches: 96, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
7 8 0.08
8 11 0.11
9 50 0.52
10 5 0.05
11 12 0.12
12 4 0.04
13 6 0.06
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:49966877 original size:31 final size:31
Alignment explanation
Indices: 49966835--49966914 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
49966825 NNNNNNNTTA
49966835 ATTAAT-TAAGTTATGTAATTTATGTATAAT
1 ATTAATGTAAGTTATGTAATTTATGTATAAT
*
49966865 ATTAATGTAAGTTATGTAATTTATGTTTAAT
1 ATTAATGTAAGTTATGTAATTTATGTATAAT
49966896 ATTAATGTAAGTTATGTAA
1 ATTAATGTAAGTTATGTAA
49966915 GTTGTAAGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 6 0.12
31 42 0.88
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTAATGTAAGTTATGTAATTTATGTATAAT
Found at i:49966922 original size:16 final size:16
Alignment explanation
Indices: 49966901--49966933 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49966891 TTAATATTAA
49966901 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
49966917 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
49966933 T
1 T
49966934 ATATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:49966926 original size:47 final size:49
Alignment explanation
Indices: 49966870--49966967 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 49
49966860 ATAATATTAA
* * *
49966870 TGTAAGTTATGTAATTTATGTTTAATATTAA-T-GTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGT
*
49966917 TGTAAGTTATGTAAGTTATATATAATATTAATTAATTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATATAATATTAATT-AGTAAGTTATGTAAGT
49966967 T
1 T
49966968 AACTATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 28 0.64
48 1 0.02
50 15 0.34
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (49 bp):
TGTAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGT
Found at i:49967053 original size:16 final size:16
Alignment explanation
Indices: 49967032--49967064 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49967022 AACTCAATTA
49967032 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
49967048 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
49967064 T
1 T
49967065 CTACAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (16 bp):
TATCTTCAAACTTATT
Found at i:49967999 original size:33 final size:33
Alignment explanation
Indices: 49967962--49968024 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
49967952 GAAAAATAAT
**
49967962 AATTAAACTATACAACTAAAATATAACCAAAAA
1 AATTAAACTATACAAAAAAAATATAACCAAAAA
49967995 AATTAAACTATACAAAAAAAATATAACCAA
1 AATTAAACTATACAAAAAAAATATAACCAA
49968025 CTTAAAGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (33 bp):
AATTAAACTATACAAAAAAAATATAACCAAAAA
Found at i:49968006 original size:20 final size:19
Alignment explanation
Indices: 49967978--49968016 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
49967968 ACTATACAAC
*
49967978 TAAAATATAACCAAAAAAAT
1 TAAAATAT-ACAAAAAAAAT
*
49967998 TAAACTATACAAAAAAAAT
1 TAAAATATACAAAAAAAAT
49968017 ATAACCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAATATACAAAAAAAAT
Found at i:49968611 original size:141 final size:141
Alignment explanation
Indices: 49968357--49968663 Score: 614
Period size: 141 Copynumber: 2.2 Consensus size: 141
49968347 TCCCATGCGC
49968357 AAAAAATATTCAACAAATTTGTAATGATAAATGACAGGAAGTTGAAATTATTCAAACAAACCGGA
1 AAAAAATATTCAACAAATTTGTAATGATAAATGACAGGAAGTTGAAATTATTCAAACAAACCGGA
49968422 TAAATGACTGGATTATCTAAGTTCAAAAGCTTCAGTTTTAAACTCAAATAGATGAAATCTGTAAT
66 TAAATGACTGGATTATCTAAGTTCAAAAGCTTCAGTTTTAAACTCAAATAGATGAAATCTGTAAT
49968487 GATTTCAACTA
131 GATTTCAACTA
49968498 AAAAAATATTCAACAAATTTGTAATGATAAATGACAGGAAGTTGAAATTATTCAAACAAACCGGA
1 AAAAAATATTCAACAAATTTGTAATGATAAATGACAGGAAGTTGAAATTATTCAAACAAACCGGA
49968563 TAAATGACTGGATTATCTAAGTTCAAAAGCTTCAGTTTTAAACTCAAATAGATGAAATCTGTAAT
66 TAAATGACTGGATTATCTAAGTTCAAAAGCTTCAGTTTTAAACTCAAATAGATGAAATCTGTAAT
49968628 GATTTCAACTA
131 GATTTCAACTA
49968639 AAAAAATATTCAACAAATTTGTAAT
1 AAAAAATATTCAACAAATTTGTAAT
49968664 TAACATGCGC
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 166 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (141 bp):
AAAAAATATTCAACAAATTTGTAATGATAAATGACAGGAAGTTGAAATTATTCAAACAAACCGGA
TAAATGACTGGATTATCTAAGTTCAAAAGCTTCAGTTTTAAACTCAAATAGATGAAATCTGTAAT
GATTTCAACTA
Found at i:49969701 original size:22 final size:22
Alignment explanation
Indices: 49969660--49969713 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
49969650 TTGTATTTTC
* *
49969660 ATTAAAATTTTTAGTAAATAATT
1 ATTAAAGTTTTAAGTAAAT-ATT
49969683 ATTAAAGTTTTAAGT-AATATT
1 ATTAAAGTTTTAAGTAAATATT
*
49969704 -TAAAAGTTTT
1 ATTAAAGTTTT
49969714 TGATAAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.32
21 3 0.11
22 3 0.11
23 13 0.46
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTAAAGTTTTAAGTAAATATT
Found at i:49970610 original size:89 final size:89
Alignment explanation
Indices: 49970462--49970861 Score: 800
Period size: 89 Copynumber: 4.5 Consensus size: 89
49970452 TAAACCTTAA
49970462 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
1 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
49970527 GAATCACTAACCCCTAACCCCTAC
66 GAATCACTAACCCCTAACCCCTAC
49970551 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
1 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
49970616 GAATCACTAACCCCTAACCCCTAC
66 GAATCACTAACCCCTAACCCCTAC
49970640 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
1 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
49970705 GAATCACTAACCCCTAACCCCTAC
66 GAATCACTAACCCCTAACCCCTAC
49970729 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
1 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
49970794 GAATCACTAACCCCTAACCCCTAC
66 GAATCACTAACCCCTAACCCCTAC
49970818 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAAT
1 ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAAT
49970862 TAATCCTAAA
Statistics
Matches: 311, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 311 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (89 bp):
ACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACTCTAACTCGACACC
GAATCACTAACCCCTAACCCCTAC
Found at i:49970891 original size:14 final size:13
Alignment explanation
Indices: 49970866--49970898 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
49970856 CTAAATTAAT
49970866 CCTAAACCCTAAC
1 CCTAAACCCTAAC
49970879 CCTAAATCCCTAAC
1 CCTAAA-CCCTAAC
49970893 CCTAAA
1 CCTAAA
49970899 AAATTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.18
Consensus pattern (13 bp):
CCTAAACCCTAAC
Found at i:49971526 original size:41 final size:41
Alignment explanation
Indices: 49971480--49971867 Score: 611
Period size: 41 Copynumber: 9.5 Consensus size: 41
49971470 GCGCTTCCTT
*
49971480 AAAAACGCCGCTAAAGGTA-C-GAGCATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAA-G-ACCTGAGCATTAGCGGCGCTTATTC
* * *
49971521 AAAAACGCTGCTAAAGACCTGAGCATTAGCGGTGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
49971562 AAAAACGCTGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
* *
49971603 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTACTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
49971644 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
49971685 AAAAACGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
49971726 AAAAACGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
* *
49971767 GAAAACGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
49971808 AAAAACGCCGCTAAAGACCTGAGTATTAGCGGCGCTT-TTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
49971848 AGAAAATGCCGCTAAAGACC
1 A-AAAACGCCGCTAAAGACC
49971868 CCAAAAACTC
Statistics
Matches: 329, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.00
40 6 0.02
41 322 0.98
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
Found at i:49971973 original size:40 final size:40
Alignment explanation
Indices: 49971918--49972038 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
49971908 CAGCGCTTTC
*
49971918 CAAAAAACGCTGCTAATGCTTATTTTTAGCGGCGTTTTTT
1 CAAAAAACGCCGCTAATGCTTATTTTTAGCGGCGTTTTTT
* * * * ** *
49971958 TAAAAATCGCCGCTAATGATCGACCTTTAGCGGC-ATTTTT
1 CAAAAAACGCCGCTAATGCT-TATTTTTAGCGGCGTTTTTT
* * * *
49971998 CCAAAAGCGCCGCTACTGCTTGATTTTTAGTGGCGTTTTTT
1 CAAAAAACGCCGCTAATGCTT-ATTTTTAGCGGCGTTTTTT
49972039 GTCCAAACGC
Statistics
Matches: 60, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
40 45 0.75
41 15 0.25
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (40 bp):
CAAAAAACGCCGCTAATGCTTATTTTTAGCGGCGTTTTTT
Found at i:49972445 original size:5 final size:5
Alignment explanation
Indices: 49972435--49972460 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49972425 ACTTGGTTTG
49972435 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
49972461 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:49973539 original size:12 final size:12
Alignment explanation
Indices: 49973522--49973576 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
49973512 CAAATTATTT
49973522 TATTTAAACTAA
1 TATTTAAACTAA
49973534 TATTTAAACT--
1 TATTTAAACTAA
**
49973544 TATTTATTAA-TTC
1 TATTTA--AACTAA
49973557 TATTTAAACTAA
1 TATTTAAACTAA
49973569 TATTTAAA
1 TATTTAAA
49973577 TGTTTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 21 0.58
13 6 0.17
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTTAAACTAA
Found at i:49973596 original size:35 final size:36
Alignment explanation
Indices: 49973513--49973601 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 36
49973503 TTTTGAACAC
49973513 AAAT-TATTTTATTTAAACTAATATTTAAACTTATT
1 AAATATATTTTATTTAAACTAATATTTAAACTTATT
* * *
49973548 TATTA-ATTCTATTTAAACTAATATTTAAA-TGT-TT
1 AAATATATTTTATTTAAACTAATATTTAAACT-TATT
49973582 AAATATATTTTATTTAAACT
1 AAATATATTTTATTTAAACT
49973602 TATTTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
34 6 0.13
35 39 0.87
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.52
Consensus pattern (36 bp):
AAATATATTTTATTTAAACTAATATTTAAACTTATT
Found at i:49973718 original size:58 final size:58
Alignment explanation
Indices: 49973534--49973693 Score: 302
Period size: 58 Copynumber: 2.8 Consensus size: 58
49973524 TTTAAACTAA
49973534 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
49973592 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
* *
49973650 TATTTAAATTTATTTATTAATTCTATTTAACCTAATATTTAAAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAAT
49973694 ATATCAAATG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 100 1.00
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (58 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
Found at i:49973989 original size:14 final size:14
Alignment explanation
Indices: 49973970--49974002 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49973960 ACCTTAAATT
49973970 CCTAAC-TCTTAACC
1 CCTAACATC-TAACC
49973984 CCTAACATCTAACC
1 CCTAACATCTAACC
49973998 CCTAA
1 CCTAA
49974003 ACCCCTAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.24
Consensus pattern (14 bp):
CCTAACATCTAACC
Found at i:49974012 original size:15 final size:15
Alignment explanation
Indices: 49973979--49974020 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
49973969 TCCTAACTCT
**
49973979 TAACCCCT-AACATC
1 TAACCCCTAAACCCC
49973993 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
*
49974008 TAACCCTTAAACC
1 TAACCCCTAAACC
49974021 ATAATTCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:49974263 original size:14 final size:14
Alignment explanation
Indices: 49974239--49974293 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
49974229 TTCTAAACCT
*
49974239 TAAATCCCTAACTC
1 TAAACCCCTAACTC
*
49974253 TTAACCCCTAACGTC
1 TAAACCCCTAAC-TC
*
49974268 -AAACCCCTAATGTC
1 TAAACCCCTAA-CTC
49974282 TAAACCCCTAAC
1 TAAACCCCTAAC
49974294 CCCTAAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.35, C:0.38, G:0.04, T:0.24
Consensus pattern (14 bp):
TAAACCCCTAACTC
Found at i:49974288 original size:15 final size:14
Alignment explanation
Indices: 49974255--49974293 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
49974245 CCTAACTCTT
49974255 AACCCCTAACGTCA
1 AACCCCTAACGTCA
*
49974269 AACCCCTAATGTCTA
1 AACCCCTAACGTC-A
49974284 AACCCCTAAC
1 AACCCCTAAC
49974294 CCCTAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.36, C:0.41, G:0.05, T:0.18
Consensus pattern (14 bp):
AACCCCTAACGTCA
Found at i:49974339 original size:14 final size:14
Alignment explanation
Indices: 49974322--49974348 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49974312 AACCCTTAAA
49974322 CCATAATCCCTAAT
1 CCATAATCCCTAAT
49974336 CCATAATCCCTAA
1 CCATAATCCCTAA
49974349 ACCTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:49988250 original size:15 final size:15
Alignment explanation
Indices: 49988231--49988268 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
49988221 TAATTAAGGT
49988231 TTAATTAAATAATT-
1 TTAATTAAATAATTA
*
49988245 TATAATTAATTAATTA
1 T-TAATTAAATAATTA
49988261 TTAATTAA
1 TTAATTAA
49988269 GGTATATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTAAATAATTA
Found at i:49991419 original size:16 final size:14
Alignment explanation
Indices: 49991390--49991423 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49991380 TTAGCTTATT
49991390 AAATATAAATAAAA
1 AAATATAAATAAAA
* *
49991404 AAATATAAACATAA
1 AAATATAAATAAAA
49991418 AAATAT
1 AAATAT
49991424 TACAAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATATAAATAAAA
Found at i:49992011 original size:32 final size:34
Alignment explanation
Indices: 49991974--49992047 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
49991964 CTATGTTATA
* *
49991974 GTTTATGCTAATT-ATATTTTTATTATAA-GGAT
1 GTTTATGCTAATTGATATTATTATAATAAGGGAT
*
49992006 TTTTATGCTAATTGGATATTATTATAATAAGGGAT
1 GTTTATGCTAATT-GATATTATTATAATAAGGGAT
49992041 GTTTATG
1 GTTTATG
49992048 GGATTGAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 12 0.34
34 13 0.37
35 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (34 bp):
GTTTATGCTAATTGATATTATTATAATAAGGGAT
Found at i:50005039 original size:38 final size:38
Alignment explanation
Indices: 50004996--50005069 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
50004986 TATTTACCAG
* *
50004996 ACTTAATCAACCTTTCAAGATATATTCTATTTTTTAAA
1 ACTTAATCAACCTTCCAAGATATATTCTAATTTTTAAA
50005034 ACTTAATCAACCTTCCAAGATATATTCTAATTTTTA
1 ACTTAATCAACCTTCCAAGATATATTCTAATTTTTA
50005070 GTGCAACCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (38 bp):
ACTTAATCAACCTTCCAAGATATATTCTAATTTTTAAA
Found at i:50010625 original size:35 final size:35
Alignment explanation
Indices: 50010574--50010773 Score: 113
Period size: 35 Copynumber: 5.6 Consensus size: 35
50010564 AGAGTTCATC
* * *
50010574 GATTTACAATCTCAACTTCATTGAAACAGCTCGTT
1 GATTTACGATCACAACTTCATTTAAACAGCTCGTT
* **
50010609 GATTTACGATCACAACTGTCATTTTTTAA-AGCTCACT
1 GATTTACGATCACAACT-TCA--TTTAAACAGCTCGTT
* * * *
50010646 AATTTACGATCATGAACACTTCA-TT-AAGAGTTCGTT
1 GATTTACGATCA--CA-ACTTCATTTAAACAGCTCGTT
** * * **
50010682 GATTTACGATTGCAACTCCATTTAAACAGTTCACT
1 GATTTACGATCACAACTTCATTTAAACAGCTCGTT
*
50010717 GATTTATGATCACAACTTTCATTTTTCAAAC--CTCGTT
1 GATTTACGATCACAAC-TTCA--TTT-AAACAGCTCGTT
*
50010754 GATTTACGATCACAGCTTCA
1 GATTTACGATCACAACTTCA
50010774 GTTCATTAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
33 5 0.04
34 3 0.02
35 38 0.31
36 26 0.21
37 34 0.27
38 7 0.06
39 8 0.06
40 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (35 bp):
GATTTACGATCACAACTTCATTTAAACAGCTCGTT
Found at i:50010728 original size:108 final size:108
Alignment explanation
Indices: 50010537--50010765 Score: 298
Period size: 108 Copynumber: 2.1 Consensus size: 108
50010527 TTCACTTTAT
* *
50010537 TAATTTACAATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCTCAACTTCATTGAAACA
1 TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCTCAACTCCATTGAAACA
** * *
50010602 GCTCGTTGATTTACGATCACAACTGTCATTTTTTAAAGCTCAC
66 GCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
* * * *
50010645 TAATTTACGATCATGAACACTTCATTAAGAGTTCGTTGATTTACGAT-TGCAACTCCATTTAAAC
1 TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCT-CAACTCCATTGAAAC
* * * **
50010709 AGTTCACTGATTTATGATCACAACTTTCATTTTTCAAACCTCGT
65 AGCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
*
50010753 TGATTTACGATCA
1 TAATTTACGATCA
50010766 CAGCTTCAGT
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 103 0.99
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (108 bp):
TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCTCAACTCCATTGAAACA
GCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
Found at i:50010955 original size:36 final size:36
Alignment explanation
Indices: 50010908--50010999 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
50010898 TCACAACTTC
* *
50010908 AGTTCATTGATTTATAATCATAAATAATTCATTAAA
1 AGTTCGTTGATTTATAATCATAAACAATTCATTAAA
* *
50010944 AGTTCGTTGATTTA-AGATCATGAACAATTCATTAAG
1 AGTTCGTTGATTTATA-ATCATAAACAATTCATTAAA
*
50010980 AGTTCGTTGATTTATGATCA
1 AGTTCGTTGATTTATAATCA
50011000 CAACTCCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (36 bp):
AGTTCGTTGATTTATAATCATAAACAATTCATTAAA
Found at i:50010956 original size:135 final size:135
Alignment explanation
Indices: 50010645--50010957 Score: 401
Period size: 135 Copynumber: 2.3 Consensus size: 135
50010635 TAAAGCTCAC
* * * * *
50010645 TAATTTACGATCATGAACACTTCATTAAGAGTTCGTTGATTTACGATTGCAACTCCATTTAAACA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
* ** * * * *
50010710 GTTCACTGATTTATGATCACAACTTTCATTTTTCAAACCTCGTTGATTTACGATCACAGCTTCAG
66 GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
50010775 TTCAT
131 TTCAT
* * * *** *
50010780 TAATTTACAATCATGACCACTTCATTAAGAGTTCACCGATTTACAATCGCAACTCCATTTAAATA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
* *
50010845 GTTCACAGATTTACAATCAAAACTGTAATTTTTTAAAGCTCGTTGATTTACGATCACAACTTCAG
66 GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
50010910 TTCAT
131 TTCAT
* * * *
50010915 TGATTTATAATCATAAATAATTCATTAAAAGTTCGTTGATTTA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTA
50010958 AGATCATGAA
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
135 151 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (135 bp):
TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
TTCAT
Found at i:50012164 original size:26 final size:26
Alignment explanation
Indices: 50012128--50012179 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
50012118 ATAACTTTTT
50012128 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
50012154 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
50012180 AAATCAGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTATTTACCAAAATATATAAAAAAA
Found at i:50014242 original size:27 final size:28
Alignment explanation
Indices: 50014202--50014257 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
50014192 GATCTGATTT
50014202 TTTTTTTTGGATATATTTTGGTAAATAAA
1 TTTTTTTT-GATATATTTTGGTAAATAAA
50014231 TTTTTTTT-ATATATTTTGGTAAATAAA
1 TTTTTTTTGATATATTTTGGTAAATAAA
50014258 AAAAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 19 0.70
29 8 0.30
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (28 bp):
TTTTTTTTGATATATTTTGGTAAATAAA
Found at i:50015508 original size:23 final size:23
Alignment explanation
Indices: 50015463--50015506 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
50015453 GCGCCGCCGT
50015463 CTACGGTGGCCGGAAAAAAGGGA
1 CTACGGTGGCCGGAAAAAAGGGA
50015486 CTACGGTGGCC-GAAAAAAGGG
1 CTACGGTGGCCGGAAAAAAGGG
50015507 GAAAATCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.34, C:0.18, G:0.39, T:0.09
Consensus pattern (23 bp):
CTACGGTGGCCGGAAAAAAGGGA
Found at i:50022614 original size:14 final size:14
Alignment explanation
Indices: 50022591--50022630 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50022581 ACAGAAAAGT
*
50022591 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
50022605 AAATCATTTTACGG
1 AAAACATTTTACAG
50022619 AAAACATTTTAC
1 AAAACATTTTAC
50022631 NNNNNNNNNN
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:50022616 original size:34 final size:35
Alignment explanation
Indices: 50022556--50022622 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
50022546 CAAACACCAG
* *
50022556 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
50022591 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
50022623 CATTTTACNN
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Done.