Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 102 of 345
Found at i:33660555 original size:11 final size:11
Alignment explanation
Indices: 33660483--33660557 Score: 50
Period size: 12 Copynumber: 6.7 Consensus size: 11
33660473 TTCCAAAAAG
*
33660483 AATATTATTTT
1 AATATTAATTT
33660494 AATAGTTTAATATT
1 AATA--TTAAT-TT
*
33660508 AA-ATTTAATAT
1 AATA-TTAATTT
*
33660519 AATACTTATTTT
1 AATA-TTAATTT
33660531 AATATT-ATTT
1 AATATTAATTT
33660541 --TATTAATTT
1 AATATTAATTT
33660550 AATATTAA
1 AATATTAA
33660558 ACTGATTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
10 3 0.06
11 15 0.29
12 16 0.31
13 5 0.10
14 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
AATATTAATTT
Found at i:33660684 original size:59 final size:62
Alignment explanation
Indices: 33660568--33660684 Score: 145
Period size: 62 Copynumber: 1.9 Consensus size: 62
33660558 ACTGATTATC
* * *
33660568 TTAATATTAAATTAAATTTAATGTTTATCTTGTAGATAAACATTATATATTTTTAATAAGAT
1 TTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAACATTATATATATTTAATAAGAT
*
33660630 TTAATATTAAACTT-AATCTAATATTTATC-T-T-GATAAATATTATAT-TAATTTAATA
1 TTAATATTAAA-TTAAATCTAATATTTATCTTGTAGATAAACATTATATAT-ATTTAATA
33660685 CTAAAGTGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
58 1 0.02
59 20 0.41
60 1 0.02
61 1 0.02
62 24 0.49
63 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (62 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAACATTATATATATTTAATAAGAT
Found at i:33663105 original size:27 final size:27
Alignment explanation
Indices: 33663075--33663278 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
33663065 ATATTGAGTC
* * *
33663075 CGCACACTCAATGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
33663102 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
33663128 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
33663156 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
33663183 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
33663210 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
33663237 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
33663264 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33663279 GTACAATTTA
Statistics
Matches: 156, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
26 26 0.17
27 106 0.68
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33666917 original size:14 final size:14
Alignment explanation
Indices: 33666898--33666925 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33666888 TATTTTACAC
33666898 TTTGATAATTTTAG
1 TTTGATAATTTTAG
33666912 TTTGATAATTTTAG
1 TTTGATAATTTTAG
33666926 GAAGATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (14 bp):
TTTGATAATTTTAG
Found at i:33672703 original size:12 final size:12
Alignment explanation
Indices: 33672686--33672710 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33672676 GTGCTTTTTT
33672686 TAAAAATATTTA
1 TAAAAATATTTA
33672698 TAAAAATATTTA
1 TAAAAATATTTA
33672710 T
1 T
33672711 TTTTGAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTTA
Found at i:33675363 original size:38 final size:38
Alignment explanation
Indices: 33675321--33675397 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
33675311 GTAGTTGAAG
33675321 AAAGAGGTGATGATTTCTTGTTAGGGCCGACGAGCAAA
1 AAAGAGGTGATGATTTCTTGTTAGGGCCGACGAGCAAA
* *
33675359 AAAGAGGTGATGATTTCTTGTTAGTGCCGATGAGCAAA
1 AAAGAGGTGATGATTTCTTGTTAGGGCCGACGAGCAAA
33675397 A
1 A
33675398 GCTCCAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (38 bp):
AAAGAGGTGATGATTTCTTGTTAGGGCCGACGAGCAAA
Found at i:33678784 original size:15 final size:16
Alignment explanation
Indices: 33678764--33678795 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33678754 GCAACAAACA
33678764 AAATTTTAA-GGATAG
1 AAATTTTAAGGGATAG
33678779 AAATTTTAAGGGATAG
1 AAATTTTAAGGGATAG
33678795 A
1 A
33678796 TGTTCCGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (16 bp):
AAATTTTAAGGGATAG
Found at i:33680789 original size:28 final size:27
Alignment explanation
Indices: 33680758--33680829 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
33680748 TTAATATTTA
33680758 AAAAATAAAAGACTAAATT-TCTAAAAAT
1 AAAAATAAAA-ACTAAATTAT-TAAAAAT
*
33680786 -AAAATAAAGAAATTAAATTATTAAAAAT
1 AAAAAT-AA-AAACTAAATTATTAAAAAT
33680814 AAAAATATAAAACTAA
1 AAAAATA-AAAACTAA
33680830 CTTCTAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 5 0.14
28 23 0.62
29 9 0.24
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (27 bp):
AAAAATAAAAACTAAATTATTAAAAAT
Found at i:33682225 original size:19 final size:19
Alignment explanation
Indices: 33682201--33682239 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33682191 ATAAGAGTTC
*
33682201 TATTTTGAAATTCAAAATT
1 TATTTTAAAATTCAAAATT
*
33682220 TATTTTAAAATTTAAAATT
1 TATTTTAAAATTCAAAATT
33682239 T
1 T
33682240 TCAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (19 bp):
TATTTTAAAATTCAAAATT
Found at i:33682247 original size:16 final size:15
Alignment explanation
Indices: 33682221--33682254 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
33682211 TTCAAAATTT
33682221 ATTTTAAAATTTAAA
1 ATTTTAAAATTTAAA
33682236 ATTTTCAAAATTTAAA
1 ATTTT-AAAATTTAAA
33682252 ATT
1 ATT
33682255 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAAAATTTAAA
Found at i:33687641 original size:2 final size:2
Alignment explanation
Indices: 33687634--33687663 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33687624 AAATATGCAT
*
33687634 AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
33687664 GTGTATGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:33689161 original size:18 final size:17
Alignment explanation
Indices: 33689126--33689179 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
33689116 TTTTAAAATT
33689126 AAAATTAAAATTTTAAA
1 AAAATTAAAATTTTAAA
33689143 AAAATTAAAATTATTAAA
1 AAAATTAAAATT-TTAAA
33689161 AAACA-TAAAATTTATAAA
1 AAA-ATTAAAATTT-TAAA
33689179 A
1 A
33689180 TTTATTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.38
18 20 0.59
19 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTAAAATTTTAAA
Found at i:33689739 original size:71 final size:71
Alignment explanation
Indices: 33689623--33689766 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
33689613 TATTCAAATT
33689623 GCATTAACAAATCTTATGTTTCATTTGTTCCTTTGCATTATTCTATTACAATTTCTATGTTATAC
1 GCATTAACAAATCTTATGTTTCATTTGTTCCTTTGCATTATTCTATTACAATTTCTATGTTATAC
33689688 TACATA
66 TACATA
33689694 GCATTAACAAATCTTATGTTTCATTTGTTCCTTTGCATTATTCTATTACAATTTCTATGTTATAC
1 GCATTAACAAATCTTATGTTTCATTTGTTCCTTTGCATTATTCTATTACAATTTCTATGTTATAC
33689759 TACATA
66 TACATA
33689765 GC
1 GC
33689767 TCTAATTTGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (71 bp):
GCATTAACAAATCTTATGTTTCATTTGTTCCTTTGCATTATTCTATTACAATTTCTATGTTATAC
TACATA
Found at i:33715513 original size:41 final size:41
Alignment explanation
Indices: 33715456--33715537 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
33715446 ATTCTAGCAC
* *
33715456 AAGTGTCTATCTGCTTCAGTGGTGGAGGAGTTTGAGGTCTT
1 AAGTGGCTATCTGCTTCAGTGGTAGAGGAGTTTGAGGTCTT
*
33715497 AAGTGGCTATCTGCTTCAGTGGTAGAGTAGTTTGAGGTCTT
1 AAGTGGCTATCTGCTTCAGTGGTAGAGGAGTTTGAGGTCTT
33715538 GGGTTCAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.37
Consensus pattern (41 bp):
AAGTGGCTATCTGCTTCAGTGGTAGAGGAGTTTGAGGTCTT
Found at i:33717769 original size:12 final size:12
Alignment explanation
Indices: 33717752--33717800 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
33717742 ACCGTCACAC
33717752 CTCTTTTCTTTT
1 CTCTTTTCTTTT
*
33717764 CTCTTTTTTTTTT
1 CTC-TTTTCTTTT
*
33717777 ATCTTTTCTTTT
1 CTCTTTTCTTTT
* *
33717789 CCCTTTTATTTT
1 CTCTTTTCTTTT
33717801 TTTCCTTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (12 bp):
CTCTTTTCTTTT
Found at i:33717782 original size:25 final size:25
Alignment explanation
Indices: 33717753--33717820 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
33717743 CCGTCACACC
33717753 TCTTTTCTTTTCTCTTTT-TTTTTT
1 TCTTTTCTTTTCTCTTTTATTTTTT
*
33717777 ATCTTTTCTTTTCCCTTTTATTTTTT
1 -TCTTTTCTTTTCTCTTTTATTTTTT
* *
33717803 TCCTTACTTTTTCTCTTT
1 TCTTTTC-TTTTCTCTTT
33717821 CTGCTGTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 22 0.59
26 15 0.41
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (25 bp):
TCTTTTCTTTTCTCTTTTATTTTTT
Found at i:33718861 original size:10 final size:10
Alignment explanation
Indices: 33718843--33718873 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33718833 AATTTCGTAG
*
33718843 ATCAGTTCAT
1 ATCATTTCAT
33718853 ATCATTTCAT
1 ATCATTTCAT
33718863 ATCATTTCAT
1 ATCATTTCAT
33718873 A
1 A
33718874 AGCAAATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (10 bp):
ATCATTTCAT
Found at i:33724995 original size:251 final size:251
Alignment explanation
Indices: 33724538--33725020 Score: 669
Period size: 251 Copynumber: 1.9 Consensus size: 251
33724528 ACATTGGTAT
* * * * *
33724538 GAGGTATGTTGAGCCTTATAGAATGGAGTTTATTGAGCTAAAATAGTGTGATAAGACAGTGGTCG
1 GAGGTATGTTGAGCCTCATAGAATAGAGTTTATTGAGCTAAAACAGGGCGATAAGACAGTGGTCG
** * * * *
33724603 AGTATGAAGCTGAGTTTTTGAGGTTGAGCCATTACGCTTCGGATATGGTGTCTACTGAGTAGGAT
66 AGTATGAAGCCAAGTTTCTAAGGTTGAGCCATTACGCTTCAGATATGGTGTCTACTGAGTAGAAT
* * * * * * *
33724668 AAGTGTATACAGCTCGAGGATGGGTTGATGTATGATTTAATGGTTCAATTTGTACCACAACAGGA
131 AAGTGTATACAGCTAGAGGATGGGCTGAGGTATGATTTAAAGGTTCAAGTTGCACCACAACAAGA
*
33724733 GAGGATGTTTGAGATTCTAGTTAAGAAGGCCAAGATTCTAGTTGAGATTCTAGTAA
196 GAGGATGTTTGAGATTCCAGTTAAGAAGGCCAAGATTCTAGTTGAGATTCTAGTAA
* * * * *
33724789 GAGGTATGTTGAGGCTCGTAGAATAGAGTTTATTTAGCTAAAACAGGGCGTTAAGGCAGTGGTCG
1 GAGGTATGTTGAGCCTCATAGAATAGAGTTTATTGAGCTAAAACAGGGCGATAAGACAGTGGTCG
* * *
33724854 AGTATGAGGCCAAGTTTCTAAGGTTGAGCCATTATGCTTTAGATATGGTGTCTACTGAGTAGAAT
66 AGTATGAAGCCAAGTTTCTAAGGTTGAGCCATTACGCTTCAGATATGGTGTCTACTGAGTAGAAT
* * * *
33724919 AAGTGTGTACAGCTAGAGGATGGGCTGAGGTATGATTTAAAGGTTTAGGTTGCACCACATCAAGA
131 AAGTGTATACAGCTAGAGGATGGGCTGAGGTATGATTTAAAGGTTCAAGTTGCACCACAACAAGA
* *
33724984 GAGGGTGTTTGAGATTCCAGTTGAGAAGGCCAAGATT
196 GAGGATGTTTGAGATTCCAGTTAAGAAGGCCAAGATT
33725021 GTATAAGAGG
Statistics
Matches: 199, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
251 199 1.00
ACGTcount: A:0.29, C:0.11, G:0.30, T:0.30
Consensus pattern (251 bp):
GAGGTATGTTGAGCCTCATAGAATAGAGTTTATTGAGCTAAAACAGGGCGATAAGACAGTGGTCG
AGTATGAAGCCAAGTTTCTAAGGTTGAGCCATTACGCTTCAGATATGGTGTCTACTGAGTAGAAT
AAGTGTATACAGCTAGAGGATGGGCTGAGGTATGATTTAAAGGTTCAAGTTGCACCACAACAAGA
GAGGATGTTTGAGATTCCAGTTAAGAAGGCCAAGATTCTAGTTGAGATTCTAGTAA
Found at i:33727143 original size:14 final size:13
Alignment explanation
Indices: 33727126--33727234 Score: 85
Period size: 14 Copynumber: 8.2 Consensus size: 13
33727116 TTATCAGGTG
33727126 GAAATGGACATAT
1 GAAATGGACATAT
*
33727139 GGAAATGGATATAT
1 -GAAATGGACATAT
* *
33727153 AGAAATGGTCTTAT
1 -GAAATGGACATAT
33727167 GAAATGGACAT-T
1 GAAATGGACATAT
* * *
33727179 GAAAAGAAAATAT
1 GAAATGGACATAT
* *
33727192 GATATGGATATAT
1 GAAATGGACATAT
* *
33727205 GGAAATGGTCTTAT
1 -GAAATGGACATAT
33727219 GAAATGGACATGAT
1 GAAATGGACAT-AT
33727233 GA
1 GA
33727235 TGTTACATGT
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
12 9 0.12
13 28 0.39
14 35 0.49
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.28
Consensus pattern (13 bp):
GAAATGGACATAT
Found at i:33730606 original size:18 final size:18
Alignment explanation
Indices: 33730583--33730621 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33730573 TACCAATTGA
33730583 GTTTGGATAGTGAATGG-T
1 GTTTGGATAGT-AATGGAT
*
33730601 GTTTGGATGGTAATGGAT
1 GTTTGGATAGTAATGGAT
33730619 GTT
1 GTT
33730622 AACTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (18 bp):
GTTTGGATAGTAATGGAT
Found at i:33732302 original size:57 final size:58
Alignment explanation
Indices: 33732204--33732325 Score: 183
Period size: 57 Copynumber: 2.1 Consensus size: 58
33732194 ATAGAAATTG
* * *
33732204 TGAAAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATAAAAA
1 TGAAAATAGAGAAATAGGAAACACTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
* * *
33732262 TGAAAATAGAGAAAT-GGAATCACTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAATAGGAAACACTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
33732319 TGAAAAT
1 TGAAAAT
33732326 GACCTGAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 44 0.76
58 14 0.24
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (58 bp):
TGAAAATAGAGAAATAGGAAACACTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
Found at i:33737001 original size:26 final size:26
Alignment explanation
Indices: 33736945--33736997 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
33736935 AGTTTATTTG
*
33736945 GCAAACTAGAGATCACCAGTTAAGTT
1 GCAAACTAGAGATCACCAGTAAAGTT
*
33736971 GCAAACTAGAGGTCCACCAGTCAAAGT
1 GCAAACTAGAGAT-CACCAGT-AAAGT
33736998 CAAAGCCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 7 0.30
28 4 0.17
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (26 bp):
GCAAACTAGAGATCACCAGTAAAGTT
Found at i:33737618 original size:13 final size:13
Alignment explanation
Indices: 33737576--33737631 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
33737566 TGATACTCTA
*
33737576 TTTTCAGGATATG
1 TTTTCAAGATATG
* *
33737589 TTTCCAAGTTATG
1 TTTTCAAGATATG
*
33737602 TTTTCAAGCTATG
1 TTTTCAAGATATG
*
33737615 TTTTAAAGATATG
1 TTTTCAAGATATG
33737628 TTTT
1 TTTT
33737632 ACGTGTGCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (13 bp):
TTTTCAAGATATG
Found at i:33743744 original size:13 final size:13
Alignment explanation
Indices: 33743726--33743751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33743716 CTTCTCTCCT
33743726 CTCTCACTTTCTC
1 CTCTCACTTTCTC
33743739 CTCTCACTTTCTC
1 CTCTCACTTTCTC
33743752 ATTTCAAGTC
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:0.08, C:0.46, G:0.00, T:0.46
Consensus pattern (13 bp):
CTCTCACTTTCTC
Found at i:33750669 original size:26 final size:26
Alignment explanation
Indices: 33750639--33750694 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
33750629 CTTTATCTAG
*
33750639 AGTTAGGAATAGTTTTTTATTTGATA
1 AGTTAAGAATAGTTTTTTATTTGATA
*
33750665 AGTTAAGATTAGTTTTTTATTTGATA
1 AGTTAAGAATAGTTTTTTATTTGATA
33750691 AGTT
1 AGTT
33750695 TTTTTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (26 bp):
AGTTAAGAATAGTTTTTTATTTGATA
Found at i:33750827 original size:17 final size:18
Alignment explanation
Indices: 33750801--33750834 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33750791 TTTATTTTTA
33750801 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
33750818 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
33750835 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:33751439 original size:25 final size:25
Alignment explanation
Indices: 33751411--33751474 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
33751401 TTTTCTCCTA
* *
33751411 AATTTTTAATTTTATTTAATTATT-T
1 AATTTTTAA-TTTATTGAATCATTAT
33751436 AATTTTTCAATTTATTGAATCATTAAT
1 AATTTTT-AATTTATTGAATCATT-AT
33751463 AATTTTT-ATTTA
1 AATTTTTAATTTA
33751475 ATTAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 24 0.71
26 2 0.06
27 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (25 bp):
AATTTTTAATTTATTGAATCATTAT
Found at i:33757926 original size:147 final size:146
Alignment explanation
Indices: 33757658--33757981 Score: 332
Period size: 147 Copynumber: 2.2 Consensus size: 146
33757648 GATGTTAATA
*
33757658 TATATATTATAATCTACTATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATA
1 TATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATA
** * * *
33757723 TAAAAATGTGCATTATAATATCATAATTGTGCATAAGGTTACATATCATTAATAATCTATC-TTA
66 TAAAAATGTAAATTACAATAACATAA-TGTGCATAAGGATACATATCATTAATAATCTA-CATTA
* *
33757787 ATTGAATAATGTTACTTG
129 ATTGAATAACGTTAATTG
** * *** * *
33757805 TATATATTATAATCTACCATAAAGTTAGTT-CTATGTTTAGGGTTTAAGTTTACGTATCATTAAT
1 TATATATTATAATCTACCATAAAGTTAGTTAC-ACATTCAAAATTTAAGGTTACGCATCATTAAT
* * **
33757869 ATTAAAATGTAAATTACAATAACAT-A-GTAGCATATAGGGATACATATCGTTGGTAATCTACAT
65 ATAAAAATGTAAATTACAATAACATAATGT-GCATA-A-GGATACATATCATTAATAATCTACAT
* **
33757932 TTATTTTATAACGTTAATTG
127 TAATTGAATAACGTTAATTG
* * *
33757952 CATATATTATAATTTACCATAAAATTAGTT
1 TATATATTATAATCTACCATAAAGTTAGTT
33757982 TCGCATTTAA
Statistics
Matches: 146, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
144 2 0.01
145 5 0.03
146 4 0.03
147 135 0.92
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (146 bp):
TATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATA
TAAAAATGTAAATTACAATAACATAATGTGCATAAGGATACATATCATTAATAATCTACATTAAT
TGAATAACGTTAATTG
Found at i:33757997 original size:147 final size:145
Alignment explanation
Indices: 33757659--33758025 Score: 327
Period size: 147 Copynumber: 2.5 Consensus size: 145
33757649 ATGTTAATAT
* * * *
33757659 ATATATTATAATCTACTATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATAT
1 ATATATTATAATCTACCATAAAGTTAGTTTC-CATTTAAAGTTTAAGGTTACGCATCATTAATAT
** * * *
33757724 AAAAATGTGCATTATAATATCATAATTGTGCATAAGGTTACATATCATTAATAATCTATCTTAAT
65 AAAAATGTAAATTACAATAACATAA-TGTGCATAAGGATACATATCATTAATAATCTATCTTAAT
* * *
33757789 TGAATAATGTTACTTGT
129 TGAATAACGTTAATTGC
* ** * *
33757806 ATATATTATAATCTACCATAAAGTTAG-TTCTATGTTTAGGGTTTAAGTTTACGTATCATTAATA
1 ATATATTATAATCTACCATAAAGTTAGTTTCCA--TTTAAAGTTTAAGGTTACGCATCATTAATA
* * **
33757870 TTAAAATGTAAATTACAATAACAT-A-GTAGCATATAGGGATACATATCGTTGGTAATCTA-CAT
64 TAAAAATGTAAATTACAATAACATAATGT-GCATA-A-GGATACATATCATTAATAATCTATC-T
* **
33757932 TTATTTTATAACGTTAATTGC
125 TAATTGAATAACGTTAATTGC
* * * *
33757953 ATATATTATAATTTACCATAAAATTAGTTTCGCATTTAATGTTT-AGGTT--GCAT-ATTACTAA
1 ATATATTATAATCTACCATAAAGTTAGTTTC-CATTTAAAGTTTAAGGTTACGCATCATTAAT-A
*
33758014 TAAAAGTGTAAA
64 TAAAAATGTAAA
33758026 GCTCAATATA
Statistics
Matches: 177, Mismatches: 34, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
143 5 0.03
144 16 0.09
145 6 0.03
146 9 0.05
147 137 0.77
148 3 0.02
149 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (145 bp):
ATATATTATAATCTACCATAAAGTTAGTTTCCATTTAAAGTTTAAGGTTACGCATCATTAATATA
AAAATGTAAATTACAATAACATAATGTGCATAAGGATACATATCATTAATAATCTATCTTAATTG
AATAACGTTAATTGC
Found at i:33759127 original size:104 final size:105
Alignment explanation
Indices: 33758926--33759146 Score: 268
Period size: 104 Copynumber: 2.1 Consensus size: 105
33758916 TCCAGGCCAA
* *
33758926 AAAGTATCGATA-CATTTTTGGCTAAGTATCGATATTTTTTGAATTACCGATACCCTTCTTAAAA
1 AAAGTATCGATACCATTTTTGGCTAAGTATCAATATTTTTTGAAATACCGATACCCTTCTTAAAA
* * * * * *
33758990 GCGATACCAAAATGGCATTCTGGTTTTTCACAAACCCTAT
66 ACGATACCAAAATAGCATTCTGGTTTCTAACAAAACCTAC
* * ** *
33759030 TAAGTATCGATACCTTTTTTTTC-AAGTATCAATATTTTTTGAAATATCGATACCCCTTCTTAAA
1 AAAGTATCGATACCATTTTTGGCTAAGTATCAATATTTTTTGAAATACCGATA-CCCTTCTTAAA
* * *
33759094 AACGATACTAAAATAGCATT-TTGTTTCTAACAAAACTTAC
65 AACGATACCAAAATAGCATTCTGGTTTCTAACAAAACCTAC
33759134 AAAGTATCGATAC
1 AAAGTATCGATAC
33759147 AGTACCAATA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
104 63 0.64
105 35 0.36
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (105 bp):
AAAGTATCGATACCATTTTTGGCTAAGTATCAATATTTTTTGAAATACCGATACCCTTCTTAAAA
ACGATACCAAAATAGCATTCTGGTTTCTAACAAAACCTAC
Found at i:33761189 original size:8 final size:8
Alignment explanation
Indices: 33761176--33761200 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33761166 TATTATAAAG
33761176 AGTAAATT
1 AGTAAATT
33761184 AGTAAATT
1 AGTAAATT
33761192 AGTAAATT
1 AGTAAATT
33761200 A
1 A
33761201 ATAATTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (8 bp):
AGTAAATT
Found at i:33768070 original size:16 final size:17
Alignment explanation
Indices: 33768058--33768270 Score: 146
Period size: 17 Copynumber: 12.6 Consensus size: 17
33768048 GACACAATTT
*
33768058 ACATAT-AACACAATTC
1 ACATATAAACACAACTC
*
33768074 ACATATAAA-ACGACTC
1 ACATATAAACACAACTC
*
33768090 ACATATAAACACAACTT
1 ACATATAAACACAACTC
* *
33768107 GCATATAAACACAGCTC
1 ACATATAAACACAACTC
* * *
33768124 GCATATAAACACATCTT
1 ACATATAAACACAACTC
* * *
33768141 GCATATAAATACATCTC
1 ACATATAAACACAACTC
* * *
33768158 ACACATAAACATAGCTC
1 ACATATAAACACAACTC
* *
33768175 ATATATAAACACAGCTC
1 ACATATAAACACAACTC
* * *
33768192 GA-ATATAAATACATCTG
1 -ACATATAAACACAACTC
* * * **
33768209 GCATATAAACATAGCGA
1 ACATATAAACACAACTC
*
33768226 ACATATAAACACATCT-
1 ACATATAAACACAACTC
*
33768242 ATCATATAAACACAGCTC
1 A-CATATAAACACAACTC
33768260 ACATATAAACA
1 ACATATAAACA
33768271 TAGCTAGCAT
Statistics
Matches: 158, Mismatches: 33, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
16 21 0.13
17 135 0.85
18 2 0.01
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.23
Consensus pattern (17 bp):
ACATATAAACACAACTC
Found at i:33768113 original size:17 final size:17
Alignment explanation
Indices: 33768091--33768298 Score: 166
Period size: 17 Copynumber: 12.3 Consensus size: 17
33768081 AAACGACTCA
* *
33768091 CATATAAACACAACTTG
1 CATATAAACACAGCTCG
33768108 CATATAAACACAGCTCG
1 CATATAAACACAGCTCG
* *
33768125 CATATAAACACATCTTG
1 CATATAAACACAGCTCG
* * *
33768142 CATATAAATACATCTCA
1 CATATAAACACAGCTCG
* * *
33768159 CACATAAACATAGCTCA
1 CATATAAACACAGCTCG
*
33768176 TATATAAACACAGCTCG
1 CATATAAACACAGCTCG
* * * *
33768193 AATATAAATACATCTGG
1 CATATAAACACAGCTCG
* ***
33768210 CATATAAACATAGCGAA
1 CATATAAACACAGCTCG
* **
33768227 CATATAAACACATCTAT
1 CATATAAACACAGCTCG
*
33768244 CATATAAACACAGCTCA
1 CATATAAACACAGCTCG
* *
33768261 CATATAAACATAGCTAG
1 CATATAAACACAGCTCG
* *
33768278 CATAT-AATATAGCTCG
1 CATATAAACACAGCTCG
33768294 CATAT
1 CATAT
33768299 TGTTATAGTT
Statistics
Matches: 153, Mismatches: 38, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
16 14 0.09
17 139 0.91
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.25
Consensus pattern (17 bp):
CATATAAACACAGCTCG
Found at i:33768134 original size:34 final size:34
Alignment explanation
Indices: 33768075--33768284 Score: 203
Period size: 34 Copynumber: 6.2 Consensus size: 34
33768065 ACACAATTCA
*
33768075 CATATAAA-AC-GACTCACATATAAACACAACTTG
1 CATATAAACACAG-CTCACATATAAACACATCTTG
*
33768108 CATATAAACACAGCTCGCATATAAACACATCTTG
1 CATATAAACACAGCTCACATATAAACACATCTTG
* * * * * **
33768142 CATATAAATACATCTCACACATAAACATAGCTCA
1 CATATAAACACAGCTCACATATAAACACATCTTG
* * *
33768176 TATATAAACACAGCTCGA-ATATAAATACATCTGG
1 CATATAAACACAGCTC-ACATATAAACACATCTTG
* **
33768210 CATATAAACATAGCGAACATATAAACACATCTAT-
1 CATATAAACACAGCTCACATATAAACACATCT-TG
* * *
33768244 CATATAAACACAGCTCACATATAAACATAGCTAG
1 CATATAAACACAGCTCACATATAAACACATCTTG
33768278 CATATAA
1 CATATAA
33768285 TATAGCTCGC
Statistics
Matches: 140, Mismatches: 31, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
33 9 0.06
34 129 0.92
35 2 0.01
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (34 bp):
CATATAAACACAGCTCACATATAAACACATCTTG
Found at i:33768167 original size:51 final size:51
Alignment explanation
Indices: 33768108--33768284 Score: 203
Period size: 51 Copynumber: 3.5 Consensus size: 51
33768098 ACACAACTTG
* **
33768108 CATATAAACACAGCTCGCATATAAACACATCTTGCATATAAATACATCTCA
1 CATATAAACATAGCTAACATATAAACACATCTTGCATATAAATACATCTCA
* * * * * * **
33768159 CACATAAACATAGCTCATATATAAACACAGCTCGAATATAAATACATCTGG
1 CATATAAACATAGCTAACATATAAACACATCTTGCATATAAATACATCTCA
* * *
33768210 CATATAAACATAGCGAACATATAAACACATCTAT-CATATAAACACAGCTCA
1 CATATAAACATAGCTAACATATAAACACATCT-TGCATATAAATACATCTCA
*
33768261 CATATAAACATAGCTAGCATATAA
1 CATATAAACATAGCTAACATATAA
33768285 TATAGCTCGC
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
51 103 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (51 bp):
CATATAAACATAGCTAACATATAAACACATCTTGCATATAAATACATCTCA
Found at i:33772870 original size:39 final size:37
Alignment explanation
Indices: 33772797--33772871 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
33772787 GTATTTTTAC
*
33772797 AAATATTATTAAATTATTTATATATAAAAATAAATTT
1 AAATATTATTAAATTATTTAAATATAAAAATAAATTT
*
33772834 AAATATTA-TATATTATTTTAAATATTATAAAATAAATT
1 AAATATTATTAAATTA-TTTAAATA-TA-AAAATAAATT
33772872 GTGACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 6 0.18
37 15 0.45
38 2 0.06
39 10 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (37 bp):
AAATATTATTAAATTATTTAAATATAAAAATAAATTT
Found at i:33778757 original size:23 final size:23
Alignment explanation
Indices: 33778731--33778777 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33778721 AGCCTCTTTG
33778731 ATGTTAGTTGTTCATTGTCTACA
1 ATGTTAGTTGTTCATTGTCTACA
33778754 ATGTTAGTTGTTCATTGTCTACA
1 ATGTTAGTTGTTCATTGTCTACA
33778777 A
1 A
33778778 GATTGTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (23 bp):
ATGTTAGTTGTTCATTGTCTACA
Found at i:33789419 original size:44 final size:44
Alignment explanation
Indices: 33789356--33789440 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
33789346 AAAAAGTAAG
*
33789356 CGTGGTCATAGGTCATTTGTCTTTGTGATAAATGACTTGATAAA
1 CGTGGCCATAGGTCATTTGTCTTTGTGATAAATGACTTGATAAA
33789400 CGTGGCCATAGGTCATTTGTCTTTGTGATAAATGACTTGAT
1 CGTGGCCATAGGTCATTTGTCTTTGTGATAAATGACTTGAT
33789441 TACTATTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.39
Consensus pattern (44 bp):
CGTGGCCATAGGTCATTTGTCTTTGTGATAAATGACTTGATAAA
Found at i:33792401 original size:16 final size:18
Alignment explanation
Indices: 33792375--33792408 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33792365 TTAGAATTGG
33792375 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
33792392 ATTG-GAAAATTAATTTA
1 ATTGAGAAAATTAATTTA
33792409 TTTAATTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:33806335 original size:154 final size:154
Alignment explanation
Indices: 33806055--33806366 Score: 588
Period size: 154 Copynumber: 2.0 Consensus size: 154
33806045 ACTCATGTTA
33806055 AACAAGTTTATTGCTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTGATTTGCT
1 AACAAGTTTATTGCTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTGATTTGCT
33806120 ACAAGCATGTTATTACTACCATGTTGATCTGTTGTAAGCATATCATGTTTCATTGCATGGGGTGG
66 ACAAGCATGTTATTACTACCATGTTGATCTGTTGTAAGCATATCATGTTTCATTGCATGGGGTGG
*
33806185 GACGATATGAATGAAGAAATTATG
131 GACGATATGAATGAAGAAACTATG
*
33806209 AACAAGTTTATTGCTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTGATTTTCT
1 AACAAGTTTATTGCTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTGATTTGCT
* *
33806274 ATAAGCATGTTATTGCTACCATGTTGATCTGTTGTAAGCATATCATGTTTCATTGCATGGGGTGG
66 ACAAGCATGTTATTACTACCATGTTGATCTGTTGTAAGCATATCATGTTTCATTGCATGGGGTGG
33806339 GACGATATGAATGAAGAAACTATG
131 GACGATATGAATGAAGAAACTATG
33806363 AACA
1 AACA
33806367 TATTATTAAC
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (154 bp):
AACAAGTTTATTGCTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTGATTTGCT
ACAAGCATGTTATTACTACCATGTTGATCTGTTGTAAGCATATCATGTTTCATTGCATGGGGTGG
GACGATATGAATGAAGAAACTATG
Found at i:33806479 original size:21 final size:21
Alignment explanation
Indices: 33806404--33806479 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
33806394 CCACATCGTT
* *
33806404 TGAGTAGTTTATCTGCACTAT
1 TGAGTAGTTTATCTGCACCAA
* * *
33806425 TGAGTGGTTTATTTACACCATA
1 TGAGTAGTTTATCTGCACCA-A
* * *
33806447 TTAGAAG-CTATCTGCACCAA
1 TGAGTAGTTTATCTGCACCAA
*
33806467 TGAGTGGTTTATC
1 TGAGTAGTTTATC
33806480 CACACCGTAA
Statistics
Matches: 38, Mismatches: 15, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
20 5 0.13
21 29 0.76
22 4 0.11
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (21 bp):
TGAGTAGTTTATCTGCACCAA
Found at i:33806485 original size:42 final size:43
Alignment explanation
Indices: 33806376--33806494 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 43
33806366 ATATTATTAA
* * *
33806376 CACCATTGAGTGGTTTATCCACATCGT-TTGAGTAGTTTATCTG
1 CACCATTGAGTGGTTTATCCACACCGTATT-AGAAGTCTATCTG
* ** *
33806419 CACTATTGAGTGGTTTATTTACACCATATTAGAAG-CTATCTG
1 CACCATTGAGTGGTTTATCCACACCGTATTAGAAGTCTATCTG
* *
33806461 CACCAATGAGTGGTTTATCCACACCGTAATAGAA
1 CACCATTGAGTGGTTTATCCACACCGTATTAGAA
33806495 ACATTAAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 34 0.55
43 26 0.42
44 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (43 bp):
CACCATTGAGTGGTTTATCCACACCGTATTAGAAGTCTATCTG
Found at i:33814631 original size:79 final size:78
Alignment explanation
Indices: 33814524--33814742 Score: 224
Period size: 79 Copynumber: 2.8 Consensus size: 78
33814514 AGAAATCGAT
* * * *
33814524 TGAACAATTCTATTTCAGAATTTTATTCCTATCGTTCACCAGGATTTGTTCGATTTTTTATTTCC
1 TGAACAATTCTATTTCAGGATTTTATTCC-ATCGTTCAACAGGATTTCTTCGATTTTCTATTTCC
33814589 AAACAAAAATCAAG
65 AAACAAAAATCAAG
* * ** * * **
33814603 TGAACAATTTTGTTTCAGGATTTTATTCCGGCCATTCAATAGGATTTCTTCGATTTTCTATTTTG
1 TGAACAATTCTATTTCAGGATTTTATTCC-ATCGTTCAACAGGATTTCTTCGATTTTCTATTTCC
* *
33814668 AAACATAAATCAAT
65 AAACAAAAATCAAG
* * * * * *
33814682 TGAACAATTCTATTTTAGGATTCTATTCCATTCGTTCAAAAGAATTTATTTGA-TTTCTATT
1 TGAACAATTCTATTTCAGGATTTTATTCCA-TCGTTCAACAGGATTTCTTCGATTTTCTATT
33814743 GTTAACAGTA
Statistics
Matches: 113, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
78 8 0.07
79 105 0.93
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (78 bp):
TGAACAATTCTATTTCAGGATTTTATTCCATCGTTCAACAGGATTTCTTCGATTTTCTATTTCCA
AACAAAAATCAAG
Found at i:33820614 original size:12 final size:12
Alignment explanation
Indices: 33820597--33820634 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33820587 CTGTGACTGC
33820597 ATTTGTATCTGA
1 ATTTGTATCTGA
*
33820609 ATTTGTGTCT-A
1 ATTTGTATCTGA
33820620 CATTTGTATCTGA
1 -ATTTGTATCTGA
33820633 AT
1 AT
33820635 CTAAATATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.05
12 20 0.91
13 1 0.05
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (12 bp):
ATTTGTATCTGA
Found at i:33820671 original size:24 final size:24
Alignment explanation
Indices: 33820618--33820673 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
33820608 AATTTGTGTC
* *
33820618 TACATTTGTATCTGAATCTAAATA
1 TACATCTGTATCTGAATATAAATA
* *
33820642 TGCATCTGTATCTGATTATGAAA-A
1 TACATCTGTATCTGAATAT-AAATA
33820666 TACATCTG
1 TACATCTG
33820674 AATTTGTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (24 bp):
TACATCTGTATCTGAATATAAATA
Found at i:33824849 original size:23 final size:24
Alignment explanation
Indices: 33824818--33824873 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 24
33824808 ACACATCAAC
* *
33824818 AATTAATTTTTAAAATGCA-AAAA
1 AATTTATTTTTAAAAGGCATAAAA
33824841 AATTTA--TTTAAAAGGCATAAAA
1 AATTTATTTTTAAAAGGCATAAAA
*
33824863 AATATATTTTT
1 AATTTATTTTT
33824874 TGATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 10 0.37
22 9 0.33
23 5 0.19
24 3 0.11
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (24 bp):
AATTTATTTTTAAAAGGCATAAAA
Found at i:33824852 original size:21 final size:22
Alignment explanation
Indices: 33824826--33824871 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
33824816 ACAATTAATT
* *
33824826 TTTAAAATGCA-AAAAAATTTA
1 TTTAAAAGGCATAAAAAATATA
33824847 TTTAAAAGGCATAAAAAATATA
1 TTTAAAAGGCATAAAAAATATA
33824869 TTT
1 TTT
33824872 TTTGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (22 bp):
TTTAAAAGGCATAAAAAATATA
Found at i:33835575 original size:60 final size:59
Alignment explanation
Indices: 33835499--33835635 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
33835489 AACTGTGTCA
* *
33835499 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGTAAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
33835559 ATATGGGTTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGTAAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
33835619 ATATGGGCTAAGGCCCA
1 ATATGGG-TAAGGCCCA
33835636 GTTAACTTTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 49 0.74
61 16 0.24
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGTAAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:33837249 original size:17 final size:18
Alignment explanation
Indices: 33837227--33837261 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33837217 AATTTAGACT
*
33837227 GTGTGGGC-CGCACGGGC
1 GTGTGGGCACACACGGGC
33837244 GTGTGGGCACACACGGGC
1 GTGTGGGCACACACGGGC
33837262 AGGCCACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.29, G:0.49, T:0.11
Consensus pattern (18 bp):
GTGTGGGCACACACGGGC
Found at i:33841718 original size:24 final size:24
Alignment explanation
Indices: 33841691--33841742 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33841681 TTAGTAAGTC
*
33841691 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
33841715 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
33841739 AAAT
1 AAAT
33841743 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:33843688 original size:24 final size:24
Alignment explanation
Indices: 33843661--33843712 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33843651 TTAGTAAGTC
*
33843661 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
33843685 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
33843709 AAAT
1 AAAT
33843713 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:33848257 original size:28 final size:29
Alignment explanation
Indices: 33848200--33848264 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
33848190 CAACATTTAA
* *
33848200 TTAATATTAAAAATATTTTTTAAGA-ATT
1 TTAATTTTAAAAATAGTTTTTAAGATATT
*
33848228 TTAATTTTAAAAATAGTTTTTACA-ATTTT
1 TTAATTTTAAAAATAGTTTTTA-AGATATT
33848257 TTAATTTT
1 TTAATTTT
33848265 TTAAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
TTAATTTTAAAAATAGTTTTTAAGATATT
Found at i:33849295 original size:35 final size:36
Alignment explanation
Indices: 33849137--33849296 Score: 220
Period size: 35 Copynumber: 4.6 Consensus size: 36
33849127 GACAATGAAA
33849137 AAAAAGGTTAGGATAGA-CTCGTCTAAGGCAACCTT
1 AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
* *
33849172 AAAGAGGTTAGGATAGACC-CGTCTAGGGCAACCTT
1 AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
* * *
33849207 AAAAAGGTTGGGATAGA-CTCGTCTAAGGTAACCTA
1 AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
*
33849242 AAAAAGGTTTGGATAGACCT-GTCTAAGGCAACCTT
1 AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
* *
33849277 AAAAAGGTTTGGTTAGACCT
1 AAAAAGGTTAGGATAGACCT
33849297 TGTTTGCACC
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
34 1 0.01
35 107 0.96
36 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (36 bp):
AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
Found at i:33861126 original size:14 final size:14
Alignment explanation
Indices: 33861107--33861141 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
33861097 CAACTAGTCT
33861107 TCTCCTCTCGTTGA
1 TCTCCTCTCGTTGA
33861121 TCTCCTCTCGTTGA
1 TCTCCTCTCGTTGA
33861135 TCTCCTC
1 TCTCCTC
33861142 AACCCATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.06, C:0.40, G:0.11, T:0.43
Consensus pattern (14 bp):
TCTCCTCTCGTTGA
Found at i:33861773 original size:17 final size:19
Alignment explanation
Indices: 33861743--33861782 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
33861733 TCTCTACCTG
33861743 TTTAGTATTAGTATTAGT-
1 TTTAGTATTAGTATTAGTA
*
33861761 TTTAGT-TTCGTATTAGTA
1 TTTAGTATTAGTATTAGTA
33861779 TTTA
1 TTTA
33861783 TTCTTAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (19 bp):
TTTAGTATTAGTATTAGTA
Found at i:33875442 original size:11 final size:9
Alignment explanation
Indices: 33875421--33875491 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 9
33875411 TTTTTACACA
33875421 TAATATTTT
1 TAATATTTT
33875430 TATATATTTTT
1 TA-ATA-TTTT
*
33875441 TAGAAATTTT
1 TA-ATATTTT
*
33875451 TAATAATTT
1 TAATATTTT
33875460 TAATATTTT
1 TAATATTTT
33875469 T-ATAATTTT
1 TAAT-ATTTT
33875478 TCAAGT-TTTT
1 T-AA-TATTTT
33875488 TAAT
1 TAAT
33875492 TTAATATTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.06
9 24 0.47
10 14 0.27
11 9 0.18
12 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TAATATTTT
Found at i:33875778 original size:18 final size:19
Alignment explanation
Indices: 33875752--33875796 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
33875742 TTTAAGTCAT
33875752 AAATT-TATTTTTA-GTGA
1 AAATTATATTTTTATGTGA
*
33875769 AAATTATATTTTTATGTTA
1 AAATTATATTTTTATGTGA
*
33875788 AAATAATAT
1 AAATTATAT
33875797 AGTAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
AAATTATATTTTTATGTGA
Found at i:33884351 original size:25 final size:25
Alignment explanation
Indices: 33884323--33884374 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
33884313 AAAGGAAAAT
33884323 AAAG-ACA-AAAAAAAAAAGAAAGTTA
1 AAAGAACATAAAAAAAAAA-AAA-TTA
*
33884348 AAAGAACATAAAAGAAAAAAAATTA
1 AAAGAACATAAAAAAAAAAAAATTA
33884373 AA
1 AA
33884375 TTTCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.38
26 6 0.25
27 9 0.38
ACGTcount: A:0.77, C:0.04, G:0.10, T:0.10
Consensus pattern (25 bp):
AAAGAACATAAAAAAAAAAAAATTA
Found at i:33893062 original size:5 final size:5
Alignment explanation
Indices: 33893054--33893095 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
33893044 TAATTAAATT
33893054 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT- ATATT- ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA AT-TTA ATTTA ATT
33893096 ATATTGTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:33893074 original size:15 final size:14
Alignment explanation
Indices: 33893043--33893100 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
33893033 GGGTAAATAG
*
33893043 TTAA-TTAAATTAT
1 TTAATTTAATTTAT
33893056 TTAATTTAATTTAAT
1 TTAATTTAATTT-AT
33893071 TTAATTTAATTTAT
1 TTAATTTAATTTAT
33893085 ATT-ATTTAATTATAT
1 -TTAATTTAATT-TAT
33893100 T
1 T
33893101 GTACATTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
13 4 0.10
14 17 0.43
15 19 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAATTTAATTTAT
Found at i:33894884 original size:13 final size:13
Alignment explanation
Indices: 33894866--33894890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33894856 CCTAACACAT
33894866 GCCCGTGTCTATG
1 GCCCGTGTCTATG
33894879 GCCCGTGTCTAT
1 GCCCGTGTCTAT
33894891 CACACGGCCA
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:0.08, C:0.32, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCTATG
Found at i:33895917 original size:45 final size:45
Alignment explanation
Indices: 33895852--33895969 Score: 202
Period size: 45 Copynumber: 2.6 Consensus size: 45
33895842 AGGGTATAAT
*
33895852 GCCGATGCCATGTCCTAGACATGGTCTTATACTGACACATCATGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTATACTGACACATCATGTA
*
33895898 GCCGATGCATGTCCCAGACATGGTATTATACTGACACATCATGTA
1 GCCGATGCATGTCCCAGACATGGTCTTATACTGACACATCATGTA
33895943 GCCGATGCATGTCCCAGACAT-GTCTTA
1 GCCGATGCATGTCCCAGACATGGTCTTA
33895970 CACTAGCTCT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
44 5 0.07
45 57 0.83
46 7 0.10
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGGTCTTATACTGACACATCATGTA
Found at i:33896011 original size:47 final size:45
Alignment explanation
Indices: 33895898--33896070 Score: 156
Period size: 47 Copynumber: 3.8 Consensus size: 45
33895888 ACATCATGTA
* * * * * *
33895898 GCCGATGCATGTCCCAGACATGGTATTATACT-GACACATC-ATGTA
1 GCCGATGCATGTCCCAGACAT-GTCTTACACTAG-CTCTTCTAAGTG
33895943 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT--TCT-AAGTG
* *
33895989 GCCGATGCCATGTCCCAGACATGGTCTTGCACTAGCTCTTGTAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTCTAA-GTG
* *
33896037 GCTGATGCATGTCCCAAACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
33896071 ACACAAATGA
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
44 10 0.09
45 24 0.22
46 23 0.21
47 29 0.27
48 22 0.20
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTCTAAGTG
Found at i:33900325 original size:13 final size:13
Alignment explanation
Indices: 33900307--33900341 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
33900297 GAAGAAAATG
33900307 GAAAATGAGAAGT
1 GAAAATGAGAAGT
33900320 GAAAATGAGAAGT
1 GAAAATGAGAAGT
33900333 GAAAA-GAGA
1 GAAAATGAGA
33900342 GAAAACAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.11
Consensus pattern (13 bp):
GAAAATGAGAAGT
Found at i:33900934 original size:290 final size:290
Alignment explanation
Indices: 33900414--33900997 Score: 1132
Period size: 290 Copynumber: 2.0 Consensus size: 290
33900404 TGAGAAGCCC
33900414 CTTGAGTTTACTAAAAGTAGAATGTCAATACCCCTTTTGTCTTTCATACATGGCCGGCCCCTTGA
1 CTTGAGTTTACTAAAAGTAGAATGTCAATACCCCTTTTGTCTTTCATACATGGCCGGCCCCTTGA
*
33900479 GTTGAGGAAGGAAGGTGGATGACTTTGTTAAATTTAGCTAGTCAAAGCTTGATTCATGAAAAGGA
66 GTTGAGGAAGGAAGGTGGATGACTTTGCTAAATTTAGCTAGTCAAAGCTTGATTCATGAAAAGGA
33900544 GTTGAACGGTCACATGGGGAAGTTGTTGTGGCTAATTTGTGATTTCTTAACAAGTCTTGGGTGCC
131 GTTGAACGGTCACATGGGGAAGTTGTTGTGGCTAATTTGTGATTTCTTAACAAGTCTTGGGTGCC
33900609 TAATTTAAATATTTTACAGACGGTTGGGCTTTCATAGCCGAATTGGGCTCTTTTCCTTCCCTAGT
196 TAATTTAAATATTTTACAGACGGTTGGGCTTTCATAGCCGAATTGGGCTCTTTTCCTTCCCTAGT
33900674 GGATGGGTTGGGCTTTAAATTAAGCAGCAG
261 GGATGGGTTGGGCTTTAAATTAAGCAGCAG
33900704 CTTGAGTTTACTAAAAGTAGAATGTCAATACCCCTTTTGTCTTTCATACATGGCCGGCCCCTTGA
1 CTTGAGTTTACTAAAAGTAGAATGTCAATACCCCTTTTGTCTTTCATACATGGCCGGCCCCTTGA
*
33900769 GTTGAGGAAGGAAGGTGGATGACTTTGCTAAATTTAGCTAGTCAAAGCTTGATTCATGGAAAGGA
66 GTTGAGGAAGGAAGGTGGATGACTTTGCTAAATTTAGCTAGTCAAAGCTTGATTCATGAAAAGGA
33900834 GTTGAACGGTCACATGGGGAAGTTGTTGTGGCTAATTTGTGATTTCTTAACAAGTCTTGGGTGCC
131 GTTGAACGGTCACATGGGGAAGTTGTTGTGGCTAATTTGTGATTTCTTAACAAGTCTTGGGTGCC
* *
33900899 TAATTTAAATATTTTATAGACGGTTGGGCTTTCATAGCCGAATTGGGCTTTTTTCCTTCCCTAGT
196 TAATTTAAATATTTTACAGACGGTTGGGCTTTCATAGCCGAATTGGGCTCTTTTCCTTCCCTAGT
33900964 GGATGGGTTGGGCTTTAAATTAAGCAGCAG
261 GGATGGGTTGGGCTTTAAATTAAGCAGCAG
33900994 CTTG
1 CTTG
33900998 TCCATTTCAT
Statistics
Matches: 290, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 290 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (290 bp):
CTTGAGTTTACTAAAAGTAGAATGTCAATACCCCTTTTGTCTTTCATACATGGCCGGCCCCTTGA
GTTGAGGAAGGAAGGTGGATGACTTTGCTAAATTTAGCTAGTCAAAGCTTGATTCATGAAAAGGA
GTTGAACGGTCACATGGGGAAGTTGTTGTGGCTAATTTGTGATTTCTTAACAAGTCTTGGGTGCC
TAATTTAAATATTTTACAGACGGTTGGGCTTTCATAGCCGAATTGGGCTCTTTTCCTTCCCTAGT
GGATGGGTTGGGCTTTAAATTAAGCAGCAG
Found at i:33904030 original size:170 final size:170
Alignment explanation
Indices: 33903839--33904178 Score: 680
Period size: 170 Copynumber: 2.0 Consensus size: 170
33903829 CATCCAAATG
33903839 GACCATTTTTTTATTTTAAAATAATAGCGAATTAATTTATATTTAAATTTAATTATATGAGATTA
1 GACCATTTTTTTATTTTAAAATAATAGCGAATTAATTTATATTTAAATTTAATTATATGAGATTA
33903904 ATGTTACTATAATTTTTATATTTTTATAATTTTAGACAGTAAAACCGACCATGCCAGCCTAAGGT
66 ATGTTACTATAATTTTTATATTTTTATAATTTTAGACAGTAAAACCGACCATGCCAGCCTAAGGT
33903969 TAAAAATATAAGTCCAAGACTATCTGAAAATGAGTTGGGT
131 TAAAAATATAAGTCCAAGACTATCTGAAAATGAGTTGGGT
33904009 GACCATTTTTTTATTTTAAAATAATAGCGAATTAATTTATATTTAAATTTAATTATATGAGATTA
1 GACCATTTTTTTATTTTAAAATAATAGCGAATTAATTTATATTTAAATTTAATTATATGAGATTA
33904074 ATGTTACTATAATTTTTATATTTTTATAATTTTAGACAGTAAAACCGACCATGCCAGCCTAAGGT
66 ATGTTACTATAATTTTTATATTTTTATAATTTTAGACAGTAAAACCGACCATGCCAGCCTAAGGT
33904139 TAAAAATATAAGTCCAAGACTATCTGAAAATGAGTTGGGT
131 TAAAAATATAAGTCCAAGACTATCTGAAAATGAGTTGGGT
33904179 TGATTGAGTT
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.39
Consensus pattern (170 bp):
GACCATTTTTTTATTTTAAAATAATAGCGAATTAATTTATATTTAAATTTAATTATATGAGATTA
ATGTTACTATAATTTTTATATTTTTATAATTTTAGACAGTAAAACCGACCATGCCAGCCTAAGGT
TAAAAATATAAGTCCAAGACTATCTGAAAATGAGTTGGGT
Found at i:33906459 original size:18 final size:20
Alignment explanation
Indices: 33906422--33906465 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
33906412 AATAACTGTA
*
33906422 ATAAAGTGTGCATAATAAAAT
1 ATAAAGTGT-CATAAAAAAAT
33906443 -TAAAGTGT-ATAAAAAAAT
1 ATAAAGTGTCATAAAAAAAT
33906461 ATAAA
1 ATAAA
33906466 AAAAAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.27
Consensus pattern (20 bp):
ATAAAGTGTCATAAAAAAAT
Found at i:33916071 original size:7 final size:7
Alignment explanation
Indices: 33916061--33916088 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
33916051 GACTATGAAA
33916061 TATGTTT
1 TATGTTT
33916068 TATGTTT
1 TATGTTT
33916075 TATGTTT
1 TATGTTT
33916082 TATGTTT
1 TATGTTT
33916089 CTAAGTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (7 bp):
TATGTTT
Found at i:33917626 original size:23 final size:24
Alignment explanation
Indices: 33917596--33917662 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
33917586 AGTTAGGATT
33917596 TTTAATATTTTTAGGTTTAAGG-C
1 TTTAATATTTTTAGGTTTAAGGTC
* * * *
33917619 TTTAATATTATTGGTGTTTAGGGTT
1 TTTAATATTTTTAG-GTTTAAGGTC
*
33917644 TTTAATATTTTTAAGTTTA
1 TTTAATATTTTTAGGTTTA
33917663 GGTTTTTTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 12 0.34
24 12 0.34
25 11 0.31
ACGTcount: A:0.25, C:0.01, G:0.16, T:0.57
Consensus pattern (24 bp):
TTTAATATTTTTAGGTTTAAGGTC
Found at i:33917669 original size:15 final size:16
Alignment explanation
Indices: 33917651--33917688 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
33917641 GTTTTTAATA
33917651 TTTTTAAGTTTA-GGT
1 TTTTTAAGTTTAGGGT
**
33917666 TTTTTGTGTTTAGGGT
1 TTTTTAAGTTTAGGGT
33917682 TTTTTAA
1 TTTTTAA
33917689 AAAGATTTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.16, C:0.00, G:0.21, T:0.63
Consensus pattern (16 bp):
TTTTTAAGTTTAGGGT
Found at i:33934249 original size:47 final size:47
Alignment explanation
Indices: 33934198--33934373 Score: 318
Period size: 47 Copynumber: 3.7 Consensus size: 47
33934188 TTAGGATTCT
* *
33934198 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
33934245 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
33934292 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
33934339 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
33934374 TCCCGAAGGG
Statistics
Matches: 126, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
46 1 0.01
47 125 0.99
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:33934548 original size:37 final size:37
Alignment explanation
Indices: 33934492--33934570 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
33934482 CCGAGCTCTA
* * *
33934492 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
* *
33934529 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
33934566 AAGAC
1 AAGAC
33934571 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:33936027 original size:40 final size:40
Alignment explanation
Indices: 33935784--33936015 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
33935774 GAGAATTGAG
33935784 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
33935824 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
33935864 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
33935904 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
33935944 AGAGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
33935984 GGTGTTATATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
33936016 ATCATGCTGG
Statistics
Matches: 172, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:33939925 original size:47 final size:47
Alignment explanation
Indices: 33939874--33940049 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
33939864 TTAGGATTCT
* *
33939874 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
33939921 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
33939968 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
33940015 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
33940050 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 1 0.01
47 115 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:33940224 original size:37 final size:37
Alignment explanation
Indices: 33940168--33940246 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
33940158 CCGAGCTCTA
* * * *
33940168 AAGACCCGATGACTACGTGTGGGGATTTTTTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
33940205 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33940242 AAGAC
1 AAGAC
33940247 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33944240 original size:22 final size:22
Alignment explanation
Indices: 33944212--33944253 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
33944202 TTAGTATGTA
33944212 TGCATGATTATTTCTCTTTAGC
1 TGCATGATTATTTCTCTTTAGC
*
33944234 TGCATGATTGTTTCTCTTTA
1 TGCATGATTATTTCTCTTTA
33944254 ACATGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (22 bp):
TGCATGATTATTTCTCTTTAGC
Found at i:33948090 original size:20 final size:21
Alignment explanation
Indices: 33948067--33948105 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33948057 TTATAATGAC
*
33948067 AAAAATTATTTT-AATTTATA
1 AAAAAATATTTTAAATTTATA
33948087 AAAAAATATTTTAAATTTA
1 AAAAAATATTTTAAATTTA
33948106 ACTTGATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAAATATTTTAAATTTATA
Found at i:33948466 original size:19 final size:19
Alignment explanation
Indices: 33948444--33948483 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33948434 TTACAATTTG
* *
33948444 AAAAGAAGTATAAGTATAA
1 AAAAAAAGTATAAGCATAA
*
33948463 AAAAAAAGTGTAAGCATAA
1 AAAAAAAGTATAAGCATAA
33948482 AA
1 AA
33948484 TACAAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.15, T:0.17
Consensus pattern (19 bp):
AAAAAAAGTATAAGCATAA
Found at i:33956105 original size:17 final size:18
Alignment explanation
Indices: 33956083--33956116 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33956073 ATAATTGTAA
33956083 TTTAAAT-TCTAATTATT
1 TTTAAATATCTAATTATT
*
33956100 TTTAAATATGTAATTAT
1 TTTAAATATCTAATTAT
33956117 CACAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATATCTAATTATT
Found at i:33977110 original size:27 final size:27
Alignment explanation
Indices: 33977080--33977257 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33977070 ATATTGAGTC
* * * *
33977080 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33977107 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33977134 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33977162 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33977189 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33977216 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33977243 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33977258 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33977219 original size:82 final size:81
Alignment explanation
Indices: 33977101--33977256 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33977091 TGCTATATAA
* *
33977101 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33977166 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33977183 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33977247 CACTTAGTGC
65 CACTTAGTGC
33977257 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33985081 original size:27 final size:27
Alignment explanation
Indices: 33985051--33985228 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33985041 ATATTGAGTC
* * * *
33985051 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33985078 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33985105 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33985133 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33985160 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33985187 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33985214 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33985229 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33985190 original size:82 final size:81
Alignment explanation
Indices: 33985072--33985227 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33985062 TGCTATATAA
* *
33985072 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33985137 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33985154 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33985218 CACTTAGTGC
65 CACTTAGTGC
33985228 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33987020 original size:27 final size:27
Alignment explanation
Indices: 33986965--33987020 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
33986955 CCCTAATTAG
* *
33986965 TAAAATGACTATTATGCCCCTGTGTGA
1 TAAAATGACTATTATGCCCCTATGAGA
* *
33986992 TAAAATGACTGTTATGTCCCTATGAGA
1 TAAAATGACTATTATGCCCCTATGAGA
33987019 TA
1 TA
33987021 TATGATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (27 bp):
TAAAATGACTATTATGCCCCTATGAGA
Found at i:33987624 original size:18 final size:19
Alignment explanation
Indices: 33987588--33987625 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
33987578 AGGCCTCTAT
*
33987588 GGATTTTATTTTTAATTTG
1 GGATTTTATATTTAATTTG
*
33987607 GGATTTTA-ATTTACTTTG
1 GGATTTTATATTTAATTTG
33987625 G
1 G
33987626 TTATAACTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (19 bp):
GGATTTTATATTTAATTTG
Found at i:33988245 original size:20 final size:20
Alignment explanation
Indices: 33988220--33988258 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33988210 AAACAGTGTC
33988220 ACACACCAATGTGGCTTGGG
1 ACACACCAATGTGGCTTGGG
* *
33988240 ACACACCCATGTGGGTTGG
1 ACACACCAATGTGGCTTGG
33988259 CCGTATGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (20 bp):
ACACACCAATGTGGCTTGGG
Found at i:33991831 original size:94 final size:94
Alignment explanation
Indices: 33991548--33991922 Score: 680
Period size: 94 Copynumber: 4.0 Consensus size: 94
33991538 AATGTGACCG
* * *
33991548 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGTG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
33991613 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
33991642 TATATGCTATTTGAATTAAGTAAATTGCCTTATT-TAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
*
33991706 AAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
33991735 TATATGCTACTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
33991800 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
33991829 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
33991894 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
33991923 GAATGTCGAT
Statistics
Matches: 271, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 90 0.33
94 181 0.67
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:33991983 original size:24 final size:24
Alignment explanation
Indices: 33991951--33992014 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
33991941 GAAAATTTCA
* *
33991951 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
33991975 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
33991999 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
33992015 ATTTGGTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:33996323 original size:35 final size:36
Alignment explanation
Indices: 33996256--33996349 Score: 118
Period size: 35 Copynumber: 2.6 Consensus size: 36
33996246 AGTACGTCAT
* *
33996256 CAATCCAACCAAAACACACAAAATGCTCATAAGATC
1 CAATCCAACCGAAACACACAAAATGCTCATAAGAGC
*
33996292 CAATCCAACCGAAACACAC-CAATGCTCATAAGAGC
1 CAATCCAACCGAAACACACAAAATGCTCATAAGAGC
* * *
33996327 GAGTCCAACTGAAACACAACAAA
1 CAATCCAACCGAAACAC-ACAAA
33996350 CAAAGAGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
35 28 0.57
36 20 0.41
37 1 0.02
ACGTcount: A:0.48, C:0.31, G:0.10, T:0.12
Consensus pattern (36 bp):
CAATCCAACCGAAACACACAAAATGCTCATAAGAGC
Found at i:33998679 original size:16 final size:18
Alignment explanation
Indices: 33998660--33998692 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33998650 CATACTAGAT
33998660 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
33998676 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
33998693 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:33999253 original size:45 final size:45
Alignment explanation
Indices: 33999164--33999380 Score: 227
Period size: 45 Copynumber: 5.0 Consensus size: 45
33999154 TTTTATCAAA
* * *
33999164 TCACCGGCAT-TTAGCCTGCTAGGCTCGAA-GCCCG---A-TATT
1 TCACCGGCATCATAGCCTTCTAGGCTCAAAGGCCCGAATAGTATT
* * * * *
33999203 TCACCGGTATTATAGCCTTCTAGGCTCGAAGGCCCGAACAGTATC
1 TCACCGGCATCATAGCCTTCTAGGCTCAAAGGCCCGAATAGTATT
* *
33999248 TCACCGGCATCATTGCCATGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCC-TTCTAGGCTCAAAGGCCCGAATAGTATT
** *
33999294 TCACCAACATCATAG-CTTGCTAGGCTCAAAGGCCCAAATAGTATT
1 TCACCGGCATCATAGCCTT-CTAGGCTCAAAGGCCCGAATAGTATT
33999339 TCACCGGCATCAT-G-CTTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATCATAGCCTT-CTAGGCTCAAAGGCCCGAATAGTA
33999381 CTGTACGATA
Statistics
Matches: 151, Mismatches: 19, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
39 9 0.06
40 17 0.11
41 5 0.03
44 30 0.20
45 54 0.36
46 36 0.24
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTTCTAGGCTCAAAGGCCCGAATAGTATT
Found at i:33999274 original size:46 final size:45
Alignment explanation
Indices: 33999199--33999380 Score: 233
Period size: 45 Copynumber: 4.0 Consensus size: 45
33999189 CGAAGCCCGA
* * * * *
33999199 TATTTCACCGGTATTATAGCCTT-CTAGGCTCGAAGGCCCGAACAG
1 TATTTCACCGGCATCATTG-CTTGCTAGGCTCAAAGGCCCGAATAG
* *
33999244 TATCTCACCGGCATCATTGCCATGCTAGGCTCAAAGGCCCGAATAG
1 TATTTCACCGGCATCATTG-CTTGCTAGGCTCAAAGGCCCGAATAG
** * *
33999290 TATTTCACCAACATCATAGCTTGCTAGGCTCAAAGGCCCAAATAG
1 TATTTCACCGGCATCATTGCTTGCTAGGCTCAAAGGCCCGAATAG
33999335 TATTTCACCGGCATCA-TGCTTGCTAGGCTCAAAGGCCCGAATAG
1 TATTTCACCGGCATCATTGCTTGCTAGGCTCAAAGGCCCGAATAG
33999379 TA
1 TA
33999381 CTGTACGATA
Statistics
Matches: 119, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
44 28 0.24
45 56 0.47
46 35 0.29
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (45 bp):
TATTTCACCGGCATCATTGCTTGCTAGGCTCAAAGGCCCGAATAG
Found at i:34007099 original size:45 final size:45
Alignment explanation
Indices: 34006990--34007253 Score: 374
Period size: 45 Copynumber: 6.0 Consensus size: 45
34006980 TTTTATCAAA
* *
34006990 TCACCGGCAT-TTAGCCTGCTAGGCTCAAA-GCCCGAAT--CATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* * ** *
34007031 TCACTGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
34007076 TCACCGGCATCATAGCCTACTAGGCTCAAAGACCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
*
34007121 TCACCGGCATCATAACCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
34007166 TCACCGGCATCACAGCCTGCTAGGCTCAAAGGCCTGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
34007211 TCATCGGCATCATAGCCTGCTAGACTCAAAGGCCCGAATAGTA
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
34007254 CAGTACGATA
Statistics
Matches: 196, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 9 0.05
42 16 0.08
43 8 0.04
45 163 0.83
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
Found at i:34010993 original size:25 final size:25
Alignment explanation
Indices: 34010965--34011017 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
34010955 TTTAATCAAC
34010965 ATATATATACTT-A-AAATTTATAAAA
1 ATATAT-TACTTAATAAATTTA-AAAA
*
34010990 ATATATTATTTAATAAATTTAAAAA
1 ATATATTACTTAATAAATTTAAAAA
34011015 ATA
1 ATA
34011018 AACACGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 14 0.56
26 7 0.28
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATATTACTTAATAAATTTAAAAA
Found at i:34014911 original size:39 final size:39
Alignment explanation
Indices: 34014852--34014991 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
34014842 ATCGTGATCT
* * *
34014852 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
34014891 GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
34014930 GAAGCCCGAAGGCTAACTGAAGCACACAAGTACTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
34014969 AAATCCCAAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
34014992 TCATCAGAGT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:34018078 original size:20 final size:20
Alignment explanation
Indices: 34018053--34018099 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
34018043 GTGTAGGCTG
34018053 CACATGGGTGTAAAGACCAT
1 CACATGGGTGTAAAGACCAT
** *
34018073 CACATGGGTGTGCAGACCTT
1 CACATGGGTGTAAAGACCAT
34018093 CACATGG
1 CACATGG
34018100 CCTAGGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (20 bp):
CACATGGGTGTAAAGACCAT
Found at i:34020058 original size:21 final size:22
Alignment explanation
Indices: 34020032--34020090 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
34020022 GTTTTAAGAA
*
34020032 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
34020053 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
34020075 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
34020091 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:34020105 original size:26 final size:24
Alignment explanation
Indices: 34020061--34020109 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
34020051 ATTTGTTTTA
*
34020061 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
34020085 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
34020110 CTTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:34020155 original size:5 final size:5
Alignment explanation
Indices: 34020145--34020174 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
34020135 AATTTAATAT
34020145 GGGCC GGGCC GGGCC GGGCC GGGCTC GGGC
1 GGGCC GGGCC GGGCC GGGCC GGGC-C GGGC
34020175 TTAGTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.37, G:0.60, T:0.03
Consensus pattern (5 bp):
GGGCC
Found at i:34021061 original size:5 final size:5
Alignment explanation
Indices: 34021051--34021086 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
34021041 AATAAATAAA
34021051 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
34021087 TTAATAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:34023289 original size:11 final size:11
Alignment explanation
Indices: 34023273--34023310 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
34023263 TCTCGTTTGT
34023273 TTCTTGATAGG
1 TTCTTGATAGG
34023284 TTCTTGATAGG
1 TTCTTGATAGG
*
34023295 TTCTTGACAGG
1 TTCTTGATAGG
34023306 TTCTT
1 TTCTT
34023311 TCCTGCAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.16, C:0.13, G:0.24, T:0.47
Consensus pattern (11 bp):
TTCTTGATAGG
Found at i:34025829 original size:15 final size:17
Alignment explanation
Indices: 34025809--34025841 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
34025799 AAAAAAATTC
34025809 TTATTTT-ATTTT-TGT
1 TTATTTTGATTTTATGT
34025824 TTATTTTGATTTTATGT
1 TTATTTTGATTTTATGT
34025841 T
1 T
34025842 AACTTAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTATTTTGATTTTATGT
Found at i:34026303 original size:44 final size:44
Alignment explanation
Indices: 34026240--34026329 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
34026230 ATCGGGATAG
34026240 ACCAATCATCCCTTAAAGTTAAACTCGATTTCAAGTCAAAGTGC
1 ACCAATCATCCCTTAAAGTTAAACTCGATTTCAAGTCAAAGTGC
34026284 ACCAATCATCCCTTAAAGTTAAACTCGATTTCAAGTCAAAGTGC
1 ACCAATCATCCCTTAAAGTTAAACTCGATTTCAAGTCAAAGTGC
34026328 AC
1 AC
34026330 GTTGGGTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.27
Consensus pattern (44 bp):
ACCAATCATCCCTTAAAGTTAAACTCGATTTCAAGTCAAAGTGC
Found at i:34028778 original size:24 final size:24
Alignment explanation
Indices: 34028742--34028801 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
34028732 TATATATTTG
*
34028742 TATTTTCAATTTATTGGAAAAAAGT
1 TATTTT-AATTTATTAGAAAAAAGT
* *
34028767 TATTTTAATTTATTAGAAAACATT
1 TATTTTAATTTATTAGAAAAAAGT
*
34028791 TATTGTAATTT
1 TATTTTAATTT
34028802 TTTAATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 25 0.81
25 6 0.19
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.50
Consensus pattern (24 bp):
TATTTTAATTTATTAGAAAAAAGT
Found at i:34030070 original size:128 final size:131
Alignment explanation
Indices: 34029907--34030171 Score: 500
Period size: 128 Copynumber: 2.0 Consensus size: 131
34029897 ACAACTTTGG
34029907 TTTGATAAAATAGAGATTATTTGACATCCATCCATTACAGATAAGATTGTGATTTCTAAATCTTG
1 TTTGATAAAATAGAGATTATTTGACATCCATCCATTACAGATAAGATTGTGATTTCTAAATCTTG
34029972 CAATTTCATTATTAAAAGTCATGGTCAAGTCGTC-TT-TAT-ACATGCAACATAAATTAAGTTTC
66 CAATTTCATTATTAAAAGTCATGGTCAAGTCGTCTTTATATAACATGCAACATAAATTAAGTTTC
34030034 T
131 T
34030035 TTTGATAAAATAGAGATTATTTGACATCCATCCATTACAGATAAGATTGTGATTTCTAAATCTTG
1 TTTGATAAAATAGAGATTATTTGACATCCATCCATTACAGATAAGATTGTGATTTCTAAATCTTG
34030100 CAATTTCATTATTAAAAGTCATGGTCAAGTCGTCTTTATATAAACATGCAACATAAATTAAGTTT
66 CAATTTCATTATTAAAAGTCATGGTCAAGTCGTCTTTATAT-AACATGCAACATAAATTAAGTTT
34030165 CT
130 CT
34030167 TTTGA
1 TTTGA
34030172 AACTTGGTAC
Statistics
Matches: 133, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
128 99 0.74
129 2 0.02
130 3 0.02
132 29 0.22
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (131 bp):
TTTGATAAAATAGAGATTATTTGACATCCATCCATTACAGATAAGATTGTGATTTCTAAATCTTG
CAATTTCATTATTAAAAGTCATGGTCAAGTCGTCTTTATATAACATGCAACATAAATTAAGTTTC
T
Found at i:34030410 original size:22 final size:22
Alignment explanation
Indices: 34030382--34030427 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34030372 TAGTGGTCTA
34030382 TTGAATCATCCACTAAACTAGC
1 TTGAATCATCCACTAAACTAGC
34030404 TTGAATCATCCACTAAACTAGC
1 TTGAATCATCCACTAAACTAGC
34030426 TT
1 TT
34030428 TTATCTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (22 bp):
TTGAATCATCCACTAAACTAGC
Found at i:34033700 original size:6 final size:6
Alignment explanation
Indices: 34033691--34033715 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34033681 ATTTCATTAC
34033691 CATTTT CATTTT CATTTT CATTTT C
1 CATTTT CATTTT CATTTT CATTTT C
34033716 CAATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (6 bp):
CATTTT
Found at i:34033982 original size:17 final size:17
Alignment explanation
Indices: 34033956--34033990 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34033946 AATCAGTAAT
*
34033956 AAACTTCGTACAATCAC
1 AAACTCCGTACAATCAC
*
34033973 AAACTCCGTACCATCAC
1 AAACTCCGTACAATCAC
34033990 A
1 A
34033991 TATACCCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.34, G:0.06, T:0.20
Consensus pattern (17 bp):
AAACTCCGTACAATCAC
Found at i:34037332 original size:3 final size:3
Alignment explanation
Indices: 34037326--34037358 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
34037316 TTATTATTTG
34037326 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34037359 TGTTTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34040865 original size:30 final size:32
Alignment explanation
Indices: 34040830--34040916 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
34040820 ATAATATGAT
* * *
34040830 TCTTTAATTATGTCTTG-TTTATT-AAATGCA
1 TCTTTAATTATGCCTTGCATTATTGAAATACA
*
34040860 TCTTTAATTAATGCCTTGCATTATTGATATACA
1 TCTTTAATT-ATGCCTTGCATTATTGAAATACA
* *
34040893 TCTTTTAATTATGACATGCATTAT
1 TC-TTTAATTATGCCTTGCATTAT
34040917 GTGTTCTGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
30 9 0.19
31 7 0.15
32 5 0.11
33 19 0.40
34 7 0.15
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (32 bp):
TCTTTAATTATGCCTTGCATTATTGAAATACA
Found at i:34043570 original size:18 final size:18
Alignment explanation
Indices: 34043450--34043568 Score: 75
Period size: 18 Copynumber: 6.4 Consensus size: 18
34043440 AAAAAAAATA
* *
34043450 AAAGAAAAAGAAATTGAA
1 AAAGAAAAAGAGATTGAG
*
34043468 AAAGAAAAAGAGAGTGAGAG
1 AAAGAAAAAGAGA-T-TGAG
*
34043488 AAAGCAAAATGAG-TTGAG
1 AAAG-AAAAAGAGATTGAG
**
34043506 ATTGAAAAAGA-ATGTGAG
1 AAAGAAAAAGAGAT-TGAG
* *
34043524 AACG-AAAAGAAAATTGA-
1 AAAGAAAAAG-AGATTGAG
34043541 AAAGAAGAAAGAGATTGGAG
1 AAAGAA-AAAGAGATT-GAG
34043561 AAAGAAAA
1 AAAGAAAA
34043569 GAAAGAGTGA
Statistics
Matches: 78, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
17 15 0.19
18 32 0.41
19 12 0.15
20 12 0.15
21 7 0.09
ACGTcount: A:0.61, C:0.02, G:0.26, T:0.12
Consensus pattern (18 bp):
AAAGAAAAAGAGATTGAG
Found at i:34049102 original size:21 final size:22
Alignment explanation
Indices: 34049051--34049107 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
34049041 TTCAATTTGT
34049051 TTTGAGTT--AATGTTTTTCAAG
1 TTTGAGTTGCAATG-TTTTCAAG
34049072 TTTGAG--GCAATGTTTT-AAG
1 TTTGAGTTGCAATGTTTTCAAG
*
34049091 TTTGAGTTGCAAAGTTT
1 TTTGAGTTGCAATGTTT
34049108 CAATGGTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 9 0.29
20 4 0.13
21 18 0.58
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (22 bp):
TTTGAGTTGCAATGTTTTCAAG
Found at i:34050151 original size:15 final size:16
Alignment explanation
Indices: 34050116--34050153 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
34050106 TACCTTCAAT
34050116 TTATTTTAAGAAATAA
1 TTATTTTAAGAAATAA
* *
34050132 TTATTTTAA-ATATTA
1 TTATTTTAAGAAATAA
34050147 TTATTTT
1 TTATTTT
34050154 CTTAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATTTTAAGAAATAA
Found at i:34053158 original size:7 final size:7
Alignment explanation
Indices: 34053146--34053171 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34053136 CCCTACTACA
34053146 TTTAAAT
1 TTTAAAT
34053153 TTTAAAT
1 TTTAAAT
34053160 TTTAAAT
1 TTTAAAT
34053167 TTTAA
1 TTTAA
34053172 TATAATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTAAAT
Found at i:34057007 original size:13 final size:14
Alignment explanation
Indices: 34056989--34057022 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
34056979 TCTTTTTATC
34056989 TTTATTTATT-TTA
1 TTTATTTATTATTA
34057002 TTTATTTATTATTA
1 TTTATTTATTATTA
*
34057016 TTAATTT
1 TTTATTT
34057023 TAAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:34057045 original size:46 final size:46
Alignment explanation
Indices: 34057006--34057107 Score: 120
Period size: 47 Copynumber: 2.2 Consensus size: 46
34056996 ATTTTATTTA
*
34057006 TTTATT-AT-TATTAATTTTAAAATTTTTGAAATATATATTTAAAATAT
1 TTTATTAATATATT-ATTTTAAAA-TTTT-AAATATATATTTTAAATAT
*
34057053 TTTATTAATATATTTTTTTAAAATTTTAAATATATATTTTGAAATTAT
1 TTTATTAATATATTATTTTAAAATTTTAAATATATATTTT-AAA-TAT
34057101 TTT-TTAA
1 TTTATTAA
34057108 AATTTTAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
46 12 0.24
47 17 0.35
48 16 0.33
49 4 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (46 bp):
TTTATTAATATATTATTTTAAAATTTTAAATATATATTTTAAATAT
Found at i:34057046 original size:22 final size:21
Alignment explanation
Indices: 34057021--34057091 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 21
34057011 TATTATTAAT
34057021 TTTAAAATTTTTGAAATATATA
1 TTTAAAATTTTT-AAATATATA
*
34057043 TTTAAAATATTTTATTAATATATTTT
1 TTTAAAAT-TTTTA--AATATA--TA
34057069 TTTAAAA-TTTTAAATATATA
1 TTTAAAATTTTTAAATATATA
34057089 TTT
1 TTT
34057092 TGAAATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
20 4 0.10
22 15 0.36
23 4 0.10
24 11 0.26
26 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
TTTAAAATTTTTAAATATATA
Found at i:34057108 original size:26 final size:24
Alignment explanation
Indices: 34057019--34057108 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
34057009 ATTATTATTA
*
34057019 ATTTTAAA-ATTTTTGAAATATAT
1 ATTTTAAATATTTTTTAAATATAT
*
34057042 ATTTAAAATATTTTATT-AATATATT
1 ATTTTAAATATTTT-TTAAATATA-T
*
34057067 TTTTTAAA-A--TTTTAAATATAT
1 ATTTTAAATATTTTTTAAATATAT
34057088 ATTTTGAAATTATTTTTTAAA
1 ATTTT-AAA-TATTTTTTAAA
34057109 ATTTTAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
21 7 0.13
22 11 0.21
23 7 0.13
24 13 0.25
25 8 0.15
26 7 0.13
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTAAATATTTTTTAAATATAT
Found at i:34057122 original size:22 final size:21
Alignment explanation
Indices: 34057088--34057142 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
34057078 TTAAATATAT
*
34057088 ATTTTGAA-ATTATTTTTTAAA
1 ATTTTAAATATTATTTTTT-AA
*
34057109 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTATTTTTTAA
34057130 ATATTTAAATATT
1 AT-TTTAAATATT
34057143 TTAAACTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:34057225 original size:14 final size:15
Alignment explanation
Indices: 34057200--34057232 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
34057190 TTAATTTCTT
34057200 TTATAATATTTTAAA
1 TTATAATATTTTAAA
34057215 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
34057229 TTAT
1 TTAT
34057233 TTTAAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Done.