Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 54 of 193
Found at i:16726017 original size:41 final size:41
Alignment explanation
Indices: 16725958--16726264 Score: 373
Period size: 41 Copynumber: 7.5 Consensus size: 41
16725948 TAGTGCAAAG
* * *
16725958 TGACTCAAGATACGACTTAGTAGGCTTTTGAGCTGGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* * *
16725999 TTACTCAAGCTATGACTTAGCAGGCTTTTGAGCTGGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* * * * * *
16726040 CGAATCAAGCTACTGCTTAGCAGACTTTTTAG-TCGATGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCT-GGTGAAA
**
16726081 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCCAGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
*
16726122 TGATTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* **
16726163 TGACTCAAGCTATGGCTTAGCAGGCTTTTGAGCCAGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* ** * *
16726204 TGATTCAAGCTATAGCTTAGAAGGCTTTTGAGCTGATGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* *
16726245 TGATTCAAGTTACGGCTTAG
1 TGACTCAAGCTACGGCTTAG
16726265 TAGGTGATTG
Statistics
Matches: 227, Mismatches: 37, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
40 1 0.00
41 226 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (41 bp):
TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
Found at i:16728490 original size:17 final size:17
Alignment explanation
Indices: 16728469--16728515 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
16728459 GACAATGTAG
*
16728469 ATGCAGGGACAATAACA
1 ATGCAGGGACAATAAAA
* **
16728486 GTGCAGTAACAATAAAA
1 ATGCAGGGACAATAAAA
16728503 ATGCAGGGACAAT
1 ATGCAGGGACAAT
16728516 TATACTACAG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (17 bp):
ATGCAGGGACAATAAAA
Found at i:16739413 original size:18 final size:16
Alignment explanation
Indices: 16739380--16739422 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
16739370 CAACAAATTA
16739380 TTTCTTTTTTCATTCT
1 TTTCTTTTTTCATTCT
*
16739396 TTTCTCTTTTTC-TTTT
1 TTTCT-TTTTTCATTCT
16739412 CTTTCTTTTTT
1 -TTTCTTTTTT
16739423 TTATAGGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTTTTCATTCT
Found at i:16740043 original size:18 final size:18
Alignment explanation
Indices: 16740000--16740035 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16739990 AGATAAACTA
*
16740000 ACAAAT-AAAATGCAGTG
1 ACAAATAAAAATGCAATG
16740017 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
16740035 A
1 A
16740036 TAACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.17
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:16740050 original size:21 final size:20
Alignment explanation
Indices: 16739998--16740061 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
16739988 GCAGATAAAC
16739998 TAAC-AAAT-AAAATGCA-G
1 TAACTAAATAAAAATGCATG
*
16740015 TGAC-AAATAAAAATGCAATG
1 TAACTAAATAAAAATGC-ATG
16740035 ATAACTAAAT-AAAATGCATG
1 -TAACTAAATAAAAATGCATG
16740055 TAACTAA
1 TAACTAA
16740062 TTACTAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.17
18 7 0.17
19 8 0.20
20 4 0.10
21 10 0.25
22 4 0.10
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (20 bp):
TAACTAAATAAAAATGCATG
Found at i:16753731 original size:41 final size:41
Alignment explanation
Indices: 16753663--16753988 Score: 411
Period size: 41 Copynumber: 8.0 Consensus size: 41
16753653 TAATGCAAAG
* *
16753663 TGACTCAAGCTACGGCTAAGAAGGCTTTTGAGCTGGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* *
16753704 TGACTCAAGCTACTGCTTAGCAAGCTTTTGAGCTGGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* * *
16753745 CGTCTCAAGCTACGGCTTAGCAGGCTTTTGAGCCGGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* ** *
16753786 TGACTCAAGCTACGACTTAGCAAACTTTTGAGCTTGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* * * **
16753827 TGATTCAAGCTACAGCTTAGCAGGCTTTTAAGCCAGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* * *
16753868 TGACTCAAGCTATGGCTTAGCATGCTTTTGAGTTGGTGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
* *
16753909 TGATTCAAGCTACGGCTTAGCAGGCTTTTGAG-TCGATGAAA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCT-GGTGAAA
* * * *
16753950 TGATTCAAGTTATGGCTTAGCAGGCTTTTGAGCCGGTGA
1 TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGA
16753989 TATGGTTAAT
Statistics
Matches: 243, Mismatches: 40, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
40 1 0.00
41 242 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (41 bp):
TGACTCAAGCTACGGCTTAGCAGGCTTTTGAGCTGGTGAAA
Found at i:16757861 original size:18 final size:18
Alignment explanation
Indices: 16757838--16757880 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
16757828 ACAAATTATT
16757838 TCTTTTTTCA-TTCTTTTC
1 TCTTTTTTCATTTC-TTTC
16757856 TCTTTTTTCATTTCTTTC
1 TCTTTTTTCATTTCTTTC
16757874 T-TTTTTT
1 TCTTTTTT
16757881 ATAGGTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (18 bp):
TCTTTTTTCATTTCTTTC
Found at i:16762515 original size:19 final size:18
Alignment explanation
Indices: 16762472--16762514 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
16762462 ACAAATTATT
16762472 TCTTTTTTCTTTCTTTTC
1 TCTTTTTTCTTTCTTTTC
16762490 TCTTTTTTCTTT-TCTTTC
1 TCTTTTTTCTTTCT-TTTC
16762508 T-TTTTTT
1 TCTTTTTT
16762515 TATGGGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TCTTTTTTCTTTCTTTTC
Found at i:16763298 original size:14 final size:14
Alignment explanation
Indices: 16763279--16763317 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
16763269 CCATAAAATT
16763279 TAAAAGGAAATAAA
1 TAAAAGGAAATAAA
*
16763293 TAAAAGTGAAA-AGA
1 TAAAAG-GAAATAAA
16763307 TAAAAGGAAAT
1 TAAAAGGAAAT
16763318 GCAATAGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
TAAAAGGAAATAAA
Found at i:16767739 original size:16 final size:18
Alignment explanation
Indices: 16767712--16767760 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 18
16767702 ATAAACTTTA
*
16767712 TGTGTGTTTATGTTT-TC
1 TGTGTTTTTATGTTTATC
*
16767729 T-TGTTTTTATGTTTATT
1 TGTGTTTTTATGTTTATC
16767746 TGTGTTTTTAT-TTTA
1 TGTGTTTTTATGTTTA
16767761 GTTTTTATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.43
17 7 0.25
18 9 0.32
ACGTcount: A:0.10, C:0.02, G:0.16, T:0.71
Consensus pattern (18 bp):
TGTGTTTTTATGTTTATC
Found at i:16768225 original size:14 final size:15
Alignment explanation
Indices: 16768206--16768234 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16768196 TATTTCAACT
16768206 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
16768220 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
16768235 CCATTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:16769065 original size:12 final size:12
Alignment explanation
Indices: 16769050--16769074 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16769040 AATGAAAAAG
16769050 AAACTGAATTAT
1 AAACTGAATTAT
16769062 AAACTGAATTAT
1 AAACTGAATTAT
16769074 A
1 A
16769075 CTAAGTGATA
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AAACTGAATTAT
Found at i:16771584 original size:17 final size:18
Alignment explanation
Indices: 16771550--16771585 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16771540 TGAATTTCTA
16771550 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
16771568 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
16771585 T
1 T
16771586 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:16772890 original size:23 final size:23
Alignment explanation
Indices: 16772864--16772909 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
16772854 TCTCACACTT
16772864 TTTCTTACTC-TTTTCTTTTTGTA
1 TTTC-TACTCATTTTCTTTTTGTA
*
16772887 TTTCTACTCATTTTTGTTTTTGT
1 TTTCTACTCA-TTTTCTTTTTGT
16772910 TCTTTTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 11 0.55
ACGTcount: A:0.09, C:0.15, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTCTACTCATTTTCTTTTTGTA
Found at i:16780579 original size:21 final size:23
Alignment explanation
Indices: 16780555--16780598 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
16780545 TCCCACTCTA
16780555 TCTCACTTC-C-TTATTTCTCCT
1 TCTCACTTCTCATTATTTCTCCT
*
16780576 TCTCTCTTCTTCATTATTTCTCC
1 TCTCACTTC-TCATTATTTCTCC
16780599 ATTTTTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
23 1 0.05
24 10 0.53
ACGTcount: A:0.09, C:0.36, G:0.00, T:0.55
Consensus pattern (23 bp):
TCTCACTTCTCATTATTTCTCCT
Found at i:16794590 original size:20 final size:20
Alignment explanation
Indices: 16794564--16794613 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
16794554 AAACCCAAAA
*
16794564 GGTATTGATA-TTTTTACAT
1 GGTATTGATATTTTTTAAAT
16794583 GAGTATTGATATTTTTTAAAT
1 G-GTATTGATATTTTTTAAAT
16794604 GGTATTGATA
1 GGTATTGATA
16794614 CCAAATTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.04
20 18 0.64
21 9 0.32
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (20 bp):
GGTATTGATATTTTTTAAAT
Found at i:16820658 original size:21 final size:20
Alignment explanation
Indices: 16820634--16820684 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
16820624 ACATTTTGGC
16820634 TGCATCTGATTCTGGTGTGGA
1 TGCATCTGATT-TGGTGTGGA
* *
16820655 TGCATCTGGCTTTGTTGTGGA
1 TGCATCT-GATTTGGTGTGGA
16820676 TGCATCTGA
1 TGCATCTGA
16820685 GTGTGATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.14, C:0.16, G:0.31, T:0.39
Consensus pattern (20 bp):
TGCATCTGATTTGGTGTGGA
Found at i:16828809 original size:123 final size:122
Alignment explanation
Indices: 16828662--16829025 Score: 604
Period size: 122 Copynumber: 3.0 Consensus size: 122
16828652 TCTGCTATCT
* * *
16828662 TTTCTTTTTATTTAATATCTCATATTAAAATAGAAATATTCTTTTAGAGAAATATATGGAAGGTT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCTTTTAGAGAAATATATGGAAGGTT
*
16828727 TATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATCTTTTTAATATTCAA
66 TATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCAT-GTTTTAATATTCAA
* *
16828785 TTTCCTTTTATATAATATATCATATTAAAATGGAAATATTCTCTTAGAGAAATATATGGAAGGTT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCTTTTAGAGAAATATATGGAAGGTT
*
16828850 TATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTAATATTTAA
66 TATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTAATATTCAA
* * * *
16828907 TTTCCTTTTATATAATATCTCATATAAAAATGGAAATTTTCCTTTAAAGAAATATATGGAAGGTT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCTTTTAGAGAAATATATGGAAGGTT
16828972 TATTAAAACATTATATTC-TTTCCAAAAGGATATTAACTTCCATGTTTTAATATT
66 TATTAAAACATTATA-TCATTTCCAAAAGGATATTAACTTCCATGTTTTAATATT
16829026 TAACGAAATC
Statistics
Matches: 227, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
122 122 0.54
123 105 0.46
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (122 bp):
TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCTTTTAGAGAAATATATGGAAGGTT
TATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTTTAATATTCAA
Found at i:16829076 original size:122 final size:120
Alignment explanation
Indices: 16828709--16829076 Score: 287
Period size: 122 Copynumber: 3.0 Consensus size: 120
16828699 ATTCTTTTAG
*
16828709 AGAAATATATGGAAGGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATCTTT
1 AGAAATATATGGAAGGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCAT-GTT
* * * *
16828774 TTAATA-TT--CAATTTCCTT-T--TATATAA-TAT-ATCATATTAAAATGGAAATATTCTCTTA
65 TTAATATTTAACAA-ATCATTATAATTTATAATTATAATCATATT---A-GTAAATA-----TTA
*
16828831 G
120 A
16828832 AGAAATATATGGAAGGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTT
1 AGAAATATATGGAAGGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTT
*** * * * * * ***
16828897 TAATATTTAATTTCCTTTTA-TATAATATCTCAT-ATAAAAATGGAAATT--TTCCT-TTAA
66 TAATATTTAA---CAAATCATTATAAT-T-T-ATAATTATAAT-CATATTAGTAAATATTAA
16828954 AGAAATATATGGAAGGTTTATTAAAACATTATATTC-TTTCCAAAAGGATATTAACTTCCATGTT
1 AGAAATATATGGAAGGTTTATTAAAACATTATA-TCATTTCCAAAAGGATATTAACTTCCATGTT
*
16829018 TTAATATTTAACGAAATCATTATAATTTATAATTATAATTATATTCAGTAAATATTAA
65 TTAATATTTAAC-AAATCATTATAATTTATAATTATAATCATATT-AGTAAATATTAA
16829076 A
1 A
16829077 CTTTTATATG
Statistics
Matches: 196, Mismatches: 26, Indels: 47
0.73 0.10 0.17
Matches are distributed among these distances:
118 6 0.03
119 8 0.04
120 3 0.02
121 8 0.04
122 88 0.45
123 65 0.33
126 1 0.01
127 3 0.02
128 2 0.01
129 1 0.01
131 2 0.01
132 3 0.02
133 2 0.01
134 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (120 bp):
AGAAATATATGGAAGGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATGTTT
TAATATTTAACAAATCATTATAATTTATAATTATAATCATATTAGTAAATATTAA
Found at i:16833292 original size:25 final size:26
Alignment explanation
Indices: 16833231--16833422 Score: 199
Period size: 26 Copynumber: 7.5 Consensus size: 26
16833221 TAGTTCTTGT
* * * * *
16833231 TAAACATTCATCGACTCAAGGCTTGT
1 TAAACATTCACCGGCTCAAAGCCTGC
*
16833257 TAAACATTCACCGGCTCGAAGCCTGC
1 TAAACATTCACCGGCTCAAAGCCTGC
*
16833283 TAAA-AGTCACCGGCTCAAAGCCTGC
1 TAAACATTCACCGGCTCAAAGCCTGC
* * * * *
16833308 TAAACATTTATCAGCTCAAGGCCTAC
1 TAAACATTCACCGGCTCAAAGCCTGC
*
16833334 TAAACATTCATCGGCTCAAAGCCTGC
1 TAAACATTCACCGGCTCAAAGCCTGC
* * *
16833360 TAAA-AGTCACCGGCTTAAAGCTTGC
1 TAAACATTCACCGGCTCAAAGCCTGC
* * *
16833385 TAAACATTCACTGGCTCAAGGCCTAC
1 TAAACATTCACCGGCTCAAAGCCTGC
16833411 TAAACATTCACC
1 TAAACATTCACC
16833423 TTACATTTCT
Statistics
Matches: 135, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
25 44 0.33
26 91 0.67
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (26 bp):
TAAACATTCACCGGCTCAAAGCCTGC
Found at i:16833312 original size:51 final size:51
Alignment explanation
Indices: 16833231--16833422 Score: 190
Period size: 51 Copynumber: 3.7 Consensus size: 51
16833221 TAGTTCTTGT
* * * * *
16833231 TAAACATTCATCGACTCAAGGCTTGTTAAACATTCACCGGCTCGAAGCCTGC
1 TAAACATTCACCGGCTCAAAGCCTGCTAAACATTCACCGGCTC-AAGCCTGC
* * * * *
16833283 TAAA-AGTCACCGGCTCAAAGCCTGCTAAACATTTATCAGCTCAAGGCCTAC
1 TAAACATTCACCGGCTCAAAGCCTGCTAAACATTCACCGGCTCAA-GCCTGC
* * * *
16833334 TAAACATTCATCGGCTCAAAGCCTGCTAAA-AGTCACCGGCTTAAAGCTTGC
1 TAAACATTCACCGGCTCAAAGCCTGCTAAACATTCACCGGC-TCAAGCCTGC
* * *
16833385 TAAACATTCACTGGCTCAAGGCCTACTAAACATTCACC
1 TAAACATTCACCGGCTCAAAGCCTGCTAAACATTCACC
16833423 TTACATTTCT
Statistics
Matches: 112, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
50 2 0.02
51 74 0.66
52 36 0.32
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (51 bp):
TAAACATTCACCGGCTCAAAGCCTGCTAAACATTCACCGGCTCAAGCCTGC
Found at i:16833358 original size:77 final size:76
Alignment explanation
Indices: 16833231--16833422 Score: 276
Period size: 77 Copynumber: 2.5 Consensus size: 76
16833221 TAGTTCTTGT
* ** *
16833231 TAAACATTCATCGACTCAAGGCTTGTTAAACATTCACCGGCTCGAAGCCTGCTAAAAGTCACCGG
1 TAAACATTCATCG-CTCAAGGCCTACTAAACATTCACCGGCTCAAAGCCTGCTAAAAGTCACCGG
16833296 CTCAAAGCCTGC
65 CTCAAAGCCTGC
* *
16833308 TAAACATTTATCAGCTCAAGGCCTACTAAACATTCATCGGCTCAAAGCCTGCTAAAAGTCACCGG
1 TAAACATTCATC-GCTCAAGGCCTACTAAACATTCACCGGCTCAAAGCCTGCTAAAAGTCACCGG
* *
16833373 CTTAAAGCTTGC
65 CTCAAAGCCTGC
*
16833385 TAAACATTCACTGGCTCAAGGCCTACTAAACATTCACC
1 TAAACATTCA-TCGCTCAAGGCCTACTAAACATTCACC
16833423 TTACATTTCT
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
77 100 0.98
78 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (76 bp):
TAAACATTCATCGCTCAAGGCCTACTAAACATTCACCGGCTCAAAGCCTGCTAAAAGTCACCGGC
TCAAAGCCTGC
Found at i:16833908 original size:34 final size:34
Alignment explanation
Indices: 16833869--16833946 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
16833859 AATGCCTACC
*
16833869 TTAATTTTCCTACAATTTATTTAACAATCTATGT
1 TTAATTTTCCTACAATTTAGTTAACAATCTATGT
*
16833903 TTAATTTTCCTACAATTTAGTTAATAATCTATGT
1 TTAATTTTCCTACAATTTAGTTAACAATCTATGT
16833937 TTAATTTTCC
1 TTAATTTTCC
16833947 ATGAGTTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (34 bp):
TTAATTTTCCTACAATTTAGTTAACAATCTATGT
Found at i:16836474 original size:63 final size:63
Alignment explanation
Indices: 16836392--16836540 Score: 163
Period size: 63 Copynumber: 2.4 Consensus size: 63
16836382 CGTGCTGTAA
* * * * * *
16836392 TGCTTGTGTAAAATGAATTGGTGATGACTATGTTGGTGCAAGAAATGATTGTGCATGTTGTTG
1 TGCTTGTGTAAAATAAATTGGTGATGACTATATTGGTGCAAGAAAAGAATGTGCATGCTGTGG
* * * * * *
16836455 TGCTTGTGTAAAACAAATTGGTTATGATTGTATTGGTGCAGGAAAAGAATGTGCGTGCTGTGG
1 TGCTTGTGTAAAATAAATTGGTGATGACTATATTGGTGCAAGAAAAGAATGTGCATGCTGTGG
* * *
16836518 TACTGGTGTAAAATAAACTGGTG
1 TGCTTGTGTAAAATAAATTGGTG
16836541 TGTGCTATGA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (63 bp):
TGCTTGTGTAAAATAAATTGGTGATGACTATATTGGTGCAAGAAAAGAATGTGCATGCTGTGG
Found at i:16847957 original size:45 final size:46
Alignment explanation
Indices: 16847906--16848000 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
16847896 ATATGGACGC
* **
16847906 TTTTATTAA-AGTTTTAGATTTATTTTATTTT-TTTATTATATCAGG
1 TTTTATTAAGAGTTTTAGATTTA-CTTATTTTCCCTATTATATCAGG
* *
16847951 TTTTATTAAGAGTTTTAGTTTTACTTATTTTCCCTATTATATTAGG
1 TTTTATTAAGAGTTTTAGATTTACTTATTTTCCCTATTATATCAGG
16847997 TTTT
1 TTTT
16848001 TATTTCCCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 16 0.37
46 27 0.63
ACGTcount: A:0.24, C:0.05, G:0.09, T:0.61
Consensus pattern (46 bp):
TTTTATTAAGAGTTTTAGATTTACTTATTTTCCCTATTATATCAGG
Found at i:16856544 original size:18 final size:17
Alignment explanation
Indices: 16856517--16856551 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16856507 CAAGTTTCAG
*
16856517 TAAATTAAATACATTTAA
1 TAAATAAAATAC-TTTAA
16856535 TAAATAAAATACTTTAA
1 TAAATAAAATACTTTAA
16856552 ATTTTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATAAAATACTTTAA
Found at i:16861341 original size:12 final size:12
Alignment explanation
Indices: 16861324--16861362 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16861314 TTACAGAATC
16861324 ATAGGCTGATTT
1 ATAGGCTGATTT
* *
16861336 ATAGGCTAATTA
1 ATAGGCTGATTT
*
16861348 ATAGGTTGATTT
1 ATAGGCTGATTT
16861360 ATA
1 ATA
16861363 TTGTATTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (12 bp):
ATAGGCTGATTT
Found at i:16862256 original size:9 final size:10
Alignment explanation
Indices: 16862239--16862264 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16862229 GTACTTAACT
16862239 TTAAAAAAAA
1 TTAAAAAAAA
16862249 TTAAAAAAAA
1 TTAAAAAAAA
16862259 TTAAAA
1 TTAAAA
16862265 TTAAGTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:16863493 original size:4 final size:4
Alignment explanation
Indices: 16863486--16863528 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
16863476 TATTTTTTAT
* *
16863486 TTAA TTAA GTTAA TTAA TTAG TTAA TTAA TTAA CTAAA TTAA T
1 TTAA TTAA -TTAA TTAA TTAA TTAA TTAA TTAA -TTAA TTAA T
16863529 GTAACCTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 26 0.79
5 7 0.21
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (4 bp):
TTAA
Found at i:16865151 original size:30 final size:30
Alignment explanation
Indices: 16865115--16865173 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
16865105 AATACAAGGG
16865115 CACATGGTCGTGTG-GTCAAGCCATGTGGAT
1 CACATGGTCGTGTGAG-CAAGCCATGTGGAT
*
16865145 CACATGGTCGTGTGAGCAAGCCGTGTGGA
1 CACATGGTCGTGTGAGCAAGCCATGTGGA
16865174 AGGCTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (30 bp):
CACATGGTCGTGTGAGCAAGCCATGTGGAT
Found at i:16869606 original size:18 final size:18
Alignment explanation
Indices: 16869583--16869618 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
16869573 ATATGTCTTC
16869583 TTTTAA-TTAAATTCTATT
1 TTTTAATTTAAATT-TATT
16869601 TTTTAATTTAAATTTATT
1 TTTTAATTTAAATTTATT
16869619 CCTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAATTTAAATTTATT
Found at i:16869624 original size:19 final size:18
Alignment explanation
Indices: 16869584--16869625 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
16869574 TATGTCTTCT
*
16869584 TTTAATTAAATTCTATTT
1 TTTAATTAAATTCTATTC
16869602 TTTAATTTAAATT-TATTCC
1 TTTAA-TTAAATTCTATT-C
16869621 TTTAA
1 TTTAA
16869626 ATTGATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTAAATTCTATTC
Found at i:16870115 original size:36 final size:34
Alignment explanation
Indices: 16870020--16870122 Score: 93
Period size: 36 Copynumber: 2.9 Consensus size: 34
16870010 TCCCTATATA
*
16870020 AATTTAAAGCAACAAATTAAATTAAAGAAAATAGAATTT
1 AATTTAAAGCAAC-AATTAAATTAAAG--AAT--AAGTT
* *
16870059 AATTAAAAG-AACAAAT-AATTAAAGAATAAGTT
1 AATTTAAAGCAACAATTAAATTAAAGAATAAGTT
*
16870091 AATTTAAAGCAACATATTTAAATTAAAAAATA
1 AATTTAAAGCAACA-A-TTAAATTAAAGAATA
16870123 GAATTTGATC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
32 12 0.22
33 4 0.07
34 4 0.07
35 1 0.02
36 19 0.35
37 3 0.06
38 3 0.06
39 8 0.15
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (34 bp):
AATTTAAAGCAACAATTAAATTAAAGAATAAGTT
Found at i:16870137 original size:70 final size:70
Alignment explanation
Indices: 16870020--16870289 Score: 344
Period size: 70 Copynumber: 3.8 Consensus size: 70
16870010 TCCCTATATA
*
16870020 AATTTAAAGCAACA-AATTAAATTAAAGAAAATAGAATTTAATTAAAAGAACAAATAATTAAAGA
1 AATTTAAAGCAACATATTTAAATT-AA-AAAATAGAATTTAATTAAAAGAACAAATAATTAAAGA
* *
16870084 ATAAGTT
64 ATAAATC
* * * * *
16870091 AATTTAAAGCAACATATTTAAATTAAAAAATAGAATTTGATCAAAAGGATAAATAATTACAGAAT
1 AATTTAAAGCAACATATTTAAATTAAAAAATAGAATTTAATTAAAAGAACAAATAATTAAAGAAT
16870156 AAATC
66 AAATC
* *
16870161 AATTTAAAGCAATATATTTAAATTAAAAAATAGAATTTAATTAAAAGAAGAAATAATTAAAGAAT
1 AATTTAAAGCAACATATTTAAATTAAAAAATAGAATTTAATTAAAAGAACAAATAATTAAAGAAT
*
16870226 AAACC
66 AAATC
* * * * * * *
16870231 AATTTAAGGCAATACATTTAAAATAAAAAAAAGAATTTAATTGAAAGAAAAAAATAATT
1 AATTTAAAGCAACATATTTAAATTAAAAAATAGAATTTAATTAAAAG-AACAAATAATT
16870290 GGTTCATTTG
Statistics
Matches: 176, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
70 142 0.81
71 26 0.15
72 8 0.05
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (70 bp):
AATTTAAAGCAACATATTTAAATTAAAAAATAGAATTTAATTAAAAGAACAAATAATTAAAGAAT
AAATC
Found at i:16870329 original size:140 final size:138
Alignment explanation
Indices: 16870020--16870336 Score: 350
Period size: 140 Copynumber: 2.3 Consensus size: 138
16870010 TCCCTATATA
*
16870020 AATTTAAAGCAACAAA-TTAAATTAAAGAAAATAGAATTTAATTAAAAGAACAAATAATTAAAGA
1 AATTTAAAGCAATAAATTTAAA-TAAA-AAAATAGAATTTAATTAAAAGAACAAATAATTAAAGA
*** * * * * * *
16870084 ATAAGTTAATTTAAAGCAACATATTTAAATTAAAAAATAGAATTTGATCAAAAGGATAAATAATT
64 ATAAACCAATTTAAAGCAACACATTTAAAATAAAAAAAAGAATTTAATCAAAAGAAAAAATAATT
16870149 ACAGAATAAATC
129 --AGAATAAATC
* * *
16870161 AATTTAAAGCAATATATTTAAATTAAAAAATAGAATTTAATTAAAAGAAGAAATAATTAAAGAAT
1 AATTTAAAGCAATAAATTTAAATAAAAAAATAGAATTTAATTAAAAGAACAAATAATTAAAGAAT
* * **
16870226 AAACCAATTTAAGGCAATACATTTAAAATAAAAAAAAGAATTTAATTGAAAGAAAAAAATAATT-
66 AAACCAATTTAAAGCAACACATTTAAAATAAAAAAAAGAATTTAATCAAAAG-AAAAAATAATTA
** ** *
16870290 GGTTCATTTG
130 GAAT-AAATC
**
16870300 AATTTAAAGCAATAAATTTAAATCGAAAAATAGAATT
1 AATTTAAAGCAATAAATTTAAATAAAAAAATAGAATT
16870337 CAGTAGATTT
Statistics
Matches: 148, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
138 2 0.01
139 36 0.24
140 79 0.53
141 26 0.18
142 5 0.03
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.29
Consensus pattern (138 bp):
AATTTAAAGCAATAAATTTAAATAAAAAAATAGAATTTAATTAAAAGAACAAATAATTAAAGAAT
AAACCAATTTAAAGCAACACATTTAAAATAAAAAAAAGAATTTAATCAAAAGAAAAAATAATTAG
AATAAATC
Found at i:16875795 original size:26 final size:26
Alignment explanation
Indices: 16875766--16875818 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
16875756 TAGATTAATG
* *
16875766 AACAAATTTCCTCTCACAAGGTTATT
1 AACAAAGTTCCTATCACAAGGTTATT
*
16875792 AACAGAGTTCCTATCACAAGGTTATT
1 AACAAAGTTCCTATCACAAGGTTATT
16875818 A
1 A
16875819 TTAGAATTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (26 bp):
AACAAAGTTCCTATCACAAGGTTATT
Found at i:16875828 original size:26 final size:26
Alignment explanation
Indices: 16875773--16875833 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
16875763 ATGAACAAAT
* *
16875773 TTCCTCTCACAAGGTTATTAACAGAG
1 TTCCTATCACAAGGTTATTAACAGAA
**
16875799 TTCCTATCACAAGGTTATTATTAGAA
1 TTCCTATCACAAGGTTATTAACAGAA
16875825 TTCCTATCA
1 TTCCTATCA
16875834 ATCACAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (26 bp):
TTCCTATCACAAGGTTATTAACAGAA
Found at i:16876005 original size:34 final size:34
Alignment explanation
Indices: 16875962--16876046 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
16875952 ACATGGCTAA
16875962 CCATCCAACACACCAAATGCT-GATAAGAGCTAGT
1 CCATCCAACACACCAAATGCTCG-TAAGAGCTAGT
*
16875996 CCATCCAACACACTAAATGCTCGTAAGAGCTAGT
1 CCATCCAACACACCAAATGCTCGTAAGAGCTAGT
16876030 CCATCCAACACACCAAA
1 CCATCCAACACACCAAA
16876047 ACACTGTAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 47 0.98
35 1 0.02
ACGTcount: A:0.39, C:0.33, G:0.12, T:0.16
Consensus pattern (34 bp):
CCATCCAACACACCAAATGCTCGTAAGAGCTAGT
Found at i:16877524 original size:40 final size:40
Alignment explanation
Indices: 16877469--16877550 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
16877459 TAAGGAAAAC
*
16877469 GAGGTCCCAATACTTCATTTCCATAAACCACTTGACTTTT
1 GAGGTCCCAATACTTCATTTCCATAAACCACTCGACTTTT
*
16877509 GAGGTCTCAATACTTCATTTCCATAAACCACTCGACTTTT
1 GAGGTCCCAATACTTCATTTCCATAAACCACTCGACTTTT
16877549 GA
1 GA
16877551 ACCGAACCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (40 bp):
GAGGTCCCAATACTTCATTTCCATAAACCACTCGACTTTT
Found at i:16879686 original size:28 final size:28
Alignment explanation
Indices: 16879646--16879700 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
16879636 GATATTCGAT
*
16879646 TTACTCCCTGTTGACCCAAAGGTCATGC
1 TTACACCCTGTTGACCCAAAGGTCATGC
16879674 TTACACCCTGTTGACCCAAAGGTCATG
1 TTACACCCTGTTGACCCAAAGGTCATG
16879701 ATGCTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (28 bp):
TTACACCCTGTTGACCCAAAGGTCATGC
Found at i:16884471 original size:28 final size:28
Alignment explanation
Indices: 16884431--16884485 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
16884421 GATATTCGAT
*
16884431 TTACTCCCTGTTGACCCAAAGGTCATGC
1 TTACTCCCTGTTGACCCAAAGCTCATGC
16884459 TTACTCCCTGTTGACCCAAAGCTCATG
1 TTACTCCCTGTTGACCCAAAGCTCATG
16884486 ATGCTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.33, G:0.16, T:0.29
Consensus pattern (28 bp):
TTACTCCCTGTTGACCCAAAGCTCATGC
Found at i:16885759 original size:15 final size:16
Alignment explanation
Indices: 16885726--16885760 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16885716 GCAATTAACT
16885726 TTTAACCCTTTTTCAA
1 TTTAACCCTTTTTCAA
*
16885742 TTTAATCCTTTTTC-A
1 TTTAACCCTTTTTCAA
16885757 TTTA
1 TTTA
16885761 TTAAGCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAACCCTTTTTCAA
Found at i:16888459 original size:21 final size:21
Alignment explanation
Indices: 16888435--16888486 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
16888425 TGAGACAATA
16888435 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* * *
16888456 CTACTGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
16888477 CTACCGATAC
1 CTACCGATAC
16888487 TAAAAACTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:16890514 original size:16 final size:16
Alignment explanation
Indices: 16890489--16890519 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16890479 GCAATTAACT
16890489 TTTAACCCTTTTTCAA
1 TTTAACCCTTTTTCAA
*
16890505 TTTAATCCTTTTTCA
1 TTTAACCCTTTTTCA
16890520 TTAATTAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAACCCTTTTTCAA
Found at i:16893400 original size:91 final size:90
Alignment explanation
Indices: 16893078--16893406 Score: 347
Period size: 91 Copynumber: 3.6 Consensus size: 90
16893068 AGTTGTGTGT
* * * * *
16893078 GTGGCTTCAATCTGCCCCTATTGATTTAGGGGTAAAAGATTGGATAGTGGGTTCAATTGCCCCTC
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAAATGCCCCTC
** *
16893143 TAGATTTAACGGTAAAAGGTTGGATG
66 TAGATTTAGGGGT-AAAGATTGGATG
* * * * * * *
16893169 GTGACTTTAATTTTCCCCTCTAGATTTAGGGGTAAAAGATTGTACGGTGACTTCAATATGCCCCT
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAA-ATGCCCCT
* * **
16893234 CTGGGTTTAGGGGTAAGAGATTATATG
65 CTAGATTTAGGGGTAA-AGATTGGATG
* * * *
16893261 ATGGCTTCAATCTGTCCCTCTAGATTTA-AGGAAAAAGATTGGATGGTGGCTTCAAACTGCCCCT
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAAA-TGCCCCT
*
16893325 CTTGATTTAGGGGTATAAGATTGGATG
65 CTAGATTTAGGGGTA-AAGATTGGATG
* * * *
16893352 GTGGCTTCAATCTACCCCTCTGGA-TTAGGGGTGAAAGATTGGATGGTGGCCTCAA
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAA
16893407 TCTACGCTTC
Statistics
Matches: 191, Mismatches: 42, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
90 4 0.02
91 140 0.73
92 47 0.25
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (90 bp):
GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAAATGCCCCTC
TAGATTTAGGGGTAAAGATTGGATG
Found at i:16893411 original size:45 final size:46
Alignment explanation
Indices: 16893078--16893409 Score: 364
Period size: 46 Copynumber: 7.3 Consensus size: 46
16893068 AGTTGTGTGT
* * *
16893078 GTGGCTTCAATCTGCCCCTATTGATTTAGGGGTAAAAGATTGGATA
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* ** *
16893124 GTGGGTTCAAT-TGCCCCTCTAGATTTAACGGTAAAAGGTTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * * * *
16893169 GTGACTTTAATTTTCCCCTCTAGATTTAGGGGTAAAAGATTGTACG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * * * **
16893215 GTGACTTCAATATGCCCCTCTGGGTTTAGGGGTAAGAGATTATATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * *
16893261 ATGGCTTCAATCTGTCCCTCTAGATTTA-AGGAAAAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * *
16893306 GTGGCTTCAAACTGCCCCTCTTGATTTAGGGGTATAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * *
16893352 GTGGCTTCAATCTACCCCTCTGGA-TTAGGGGTGAAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
*
16893397 GTGGCCTCAATCT
1 GTGGCTTCAATCT
16893410 ACGCTTCTGA
Statistics
Matches: 236, Mismatches: 48, Indels: 5
0.82 0.17 0.02
Matches are distributed among these distances:
45 103 0.44
46 133 0.56
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (46 bp):
GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
Found at i:16896014 original size:46 final size:46
Alignment explanation
Indices: 16895942--16896052 Score: 152
Period size: 46 Copynumber: 2.4 Consensus size: 46
16895932 AGTTGTATGT
* *
16895942 GTGGCTTTAATCTACCCCTCTTGATTTAGGGGTAAAAGATTGGATG
1 GTGGCTTTAATCTACCCCTCTGGATTTAAGGGTAAAAGATTGGATG
* *
16895988 GTTGG-TTTAATCTTCCCCTCTGGATTTAAGGGTAAAAGGTTGGATG
1 G-TGGCTTTAATCTACCCCTCTGGATTTAAGGGTAAAAGATTGGATG
* *
16896034 GTGGCTTCAATCTGCCCCT
1 GTGGCTTTAATCTACCCCT
16896053 TTGAATTAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
45 3 0.05
46 51 0.89
47 3 0.05
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (46 bp):
GTGGCTTTAATCTACCCCTCTGGATTTAAGGGTAAAAGATTGGATG
Found at i:16898830 original size:46 final size:45
Alignment explanation
Indices: 16898780--16899057 Score: 308
Period size: 46 Copynumber: 6.1 Consensus size: 45
16898770 GTCCCTATAG
* *
16898780 ATTTAGGGGTAAAAGATTGGATGGCGGCTTCAATCTACCCCTTTGA
1 ATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTTT-A
* * * * * *
16898826 ATTTAAGGGTAAAAGGTTAGATGGTTGCTTTAATCTATCCCTCTA
1 ATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTTTA
*
16898871 GATTTACGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTTA
1 -ATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCT-TTA
* * **
16898918 ATTTAAGGGTAAAAGATTAGATGGTGGCTTCAATATGGCCCTTTA
1 ATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTTTA
* * **
16898963 GATTTAAGGGTATAAAAATT-GATGGTGACTTCAATCTACCCCTCTGG
1 -ATTTAAGGGTA-AAAGATTGGATGGTGGCTTCAATCTACCCCT-TTA
* *
16899010 A-TTAGGGGTAAAAGATTGGATGGTGGCTTTAATCTACCCCTTTGA
1 ATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTTT-A
16899055 ATT
1 ATT
16899058 AGCTGTCAAA
Statistics
Matches: 191, Mismatches: 33, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
44 7 0.04
45 34 0.18
46 141 0.74
47 9 0.05
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (45 bp):
ATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTTTA
Found at i:16898873 original size:92 final size:92
Alignment explanation
Indices: 16898771--16899050 Score: 359
Period size: 92 Copynumber: 3.1 Consensus size: 92
16898761 CTTCACGTTG
* *
16898771 TCCCTATAGATTTAGGGGTAAAAGATTGGATGGCGGCTTCAATCTACCCCTTTGAATTTAAGGGT
1 TCCCTATAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTTTGAATTTAAGGGT
* *
16898836 AAAAGGTTAGATGGTTGCTTTAATCTA
66 AAAAGATTAGATGGTGGCTTTAATCTA
* *
16898863 TCCCTCTAGATTTACGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTT-AATTTAAGGG
1 TCCCTATAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCT-TTGAATTTAAGGG
* * *
16898927 TAAAAGATTAGATGGTGGCTTCAATATG
65 TAAAAGATTAGATGGTGGCTTTAATCTA
* * * * * * *
16898955 GCCCTTTAGATTTAAGGGTATAAAAATT-GATGGTGACTTCAATCTACCCCTCTGGA-TTAGGGG
1 TCCCTATAGATTTAAGGGTA-AAAGATTGGATGGTGGCTTCAATCTACCCCTTTGAATTTAAGGG
*
16899018 TAAAAGATTGGATGGTGGCTTTAATCTA
65 TAAAAGATTAGATGGTGGCTTTAATCTA
*
16899046 CCCCT
1 TCCCT
16899051 TTGAATTAGC
Statistics
Matches: 164, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
91 35 0.21
92 121 0.74
93 8 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (92 bp):
TCCCTATAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTTTGAATTTAAGGGT
AAAAGATTAGATGGTGGCTTTAATCTA
Found at i:16899006 original size:138 final size:137
Alignment explanation
Indices: 16898780--16899050 Score: 368
Period size: 138 Copynumber: 2.0 Consensus size: 137
16898770 GTCCCTATAG
* * * **
16898780 ATTTAGGGGTAAAAGATTGGATGGCGGCTTCAATCTACCCCTTTGAATTTAAGGGTAAAAGGTTA
1 ATTTAAGGGTAAAAGATTAGATGGCGGCTTCAATATACCCCTTTGAATTTAAGGGTAAAAAATTA
* *
16898845 GATGGTTGCTTTAATCTATCCCTCTAGATTTACGGGTAAAAGATTGGATGGTGGCTTCAATCTAC
66 GATGGTTGCTTCAATCTACCCCTCTAGA-TTACGGGTAAAAGATTGGATGGTGGCTTCAATCTAC
16898910 CCCTCTTA
130 CCCTCTTA
* **
16898918 ATTTAAGGGTAAAAGATTAGATGGTGGCTTCAATATGGCCCTTT-AGATTTAAGGGTATAAAAAT
1 ATTTAAGGGTAAAAGATTAGATGGCGGCTTCAATATACCCCTTTGA-ATTTAAGGGTA-AAAAAT
* * *
16898982 T-GATGG-TGACTTCAATCTACCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGGCTTTAATCT
64 TAGATGGTTG-CTTCAATCTACCCCTCTAGATTACGGGTAAAAGATTGGATGGTGGCTTCAATCT
16899045 ACCCCT
128 ACCCCT
16899051 TTGAATTAGC
Statistics
Matches: 117, Mismatches: 13, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
137 41 0.35
138 71 0.61
139 5 0.04
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (137 bp):
ATTTAAGGGTAAAAGATTAGATGGCGGCTTCAATATACCCCTTTGAATTTAAGGGTAAAAAATTA
GATGGTTGCTTCAATCTACCCCTCTAGATTACGGGTAAAAGATTGGATGGTGGCTTCAATCTACC
CCTCTTA
Found at i:16901769 original size:46 final size:46
Alignment explanation
Indices: 16901711--16902348 Score: 679
Period size: 46 Copynumber: 14.1 Consensus size: 46
16901701 AGTTGTGTGT
* * * * *
16901711 GTGGATTCAATTTGCCCCTTTAGATTTAGGTGTAAAAGATTAGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * *
16901757 CTGGCTTCAATTTGCCCCTCT-GTATTTAGGGGTAAAAGGTTGGATT
1 GTGGCTTCAATCTGCCCCTCTAG-ATTTAGGGGTAAAAGATTGGATG
16901803 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * * *
16901849 GTGGCTTCAATCTACCCGTCTAGATTTAAGGATATAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * *
16901895 GTGGCTTCAATCTACCCCTATAGA-TTAGGAGTAAAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * *
16901940 GTGGCTTCTATCTACCTCTCTAGATTTAGGGGTAAAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * * *
16901986 GTGGCTTCAGTCTGCCCCTTTGGATTTAAGGTTAAAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* *
16902032 GTGGCTTCAATCTGCCCCTCTAGATTTAAGGGTAAAAGATTTGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
**
16902078 GTGGCTGT-AGCCT-CTCCCTCTAGATTTAGGGGTAAAAGATTGGATG
1 GTGGCT-TCAATCTGC-CCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * *
16902124 ATGGCTTTAATCTGCCTCTCTAGATTTAAGGGTAAAAGATTGGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * * * *
16902170 GTGGCTTTAATCTACCCTTTTGGA-TTAGGGGTAAAAGGTTGGA--
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* ** * * *
16902213 -TGGCTTCAATTTGCCTTTTTGGATTTAGGGGTAAAAGATTGGATA
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * * * * *
16902258 GTGGCTTTAATCTACCTCTTTGGA-TTAGGGGTAAATGATTGG-T-
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
* * *
16902301 -TGACTTCAATCTGCCCCTCTAGATTTAGGGGTAGAAGATTAGATG
1 GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
16902346 GTG
1 GTG
16902349 TTGTAACTTC
Statistics
Matches: 502, Mismatches: 75, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
42 36 0.07
43 33 0.07
44 2 0.00
45 75 0.15
46 353 0.70
47 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (46 bp):
GTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAAAGATTGGATG
Found at i:16902214 original size:275 final size:271
Alignment explanation
Indices: 16901711--16902348 Score: 779
Period size: 275 Copynumber: 2.3 Consensus size: 271
16901701 AGTTGTGTGT
* * * * *
16901711 GTGGATTCAATTTGCCCCTTTAGATTT-AGGTGTAAAAGATTAGATGCTGGCTTCAATTTGCCCC
1 GTGGCTTCAATCTGCCCCTTTGGATTTAAGGT-TAAAAGATTGGATG-TGGCTTCAATCTGCCCC
* * * *
16901775 TCT-GTATTTAGGGGTAAAAGGTTGGATTGTGGCTTCAATCTGCCCCTCTAGATTTAGGGGTAAA
64 TCTAG-ATTTAGGGGTAAAAGATTAGATGGTGGCTTCAACCTGCCCCTCTAGATTTAGGGGTAAA
* *
16901839 AGATTGGATGGTGGCTTCAATCTACCCGTCTAGATTTAAGGATATAAGATTGGATGGTGGCTTCA
128 AGATTGGATGATGGCTTCAATCTACCCGTCTAGATTTAAGGATAAAAGATTGGATGGTGGCTTCA
*
16901904 ATCTACCCCTATAGATTAGGAGTAAAAGATTGGATGGTGGCTTCTATCTACCTCTCTAGATTTAG
193 ATCTACCCCTATAGATTAGGAGTAAAAGATTGGA---TGGCTTCAATCTACCTCTCTAGATTTAG
*
16901969 GGGTAAAAGATTGGATG
255 GGGTAAAAGATTGGATA
*
16901986 GTGGCTTCAGTCTGCCCCTTTGGATTTAAGGTTAAAAGATTGGATGGTGGCTTCAATCTGCCCCT
1 GTGGCTTCAATCTGCCCCTTTGGATTTAAGGTTAAAAGATTGGAT-GTGGCTTCAATCTGCCCCT
* * *
16902051 CTAGATTTAAGGGTAAAAGATTTGATGGTGGCTGT-AGCCT-CTCCCTCTAGATTTAGGGGTAAA
65 CTAGATTTAGGGGTAAAAGATTAGATGGTGGCT-TCAACCTGC-CCCTCTAGATTTAGGGGTAAA
* * * *
16902114 AGATTGGATGATGGCTTTAATCTGCCTC-TCTAGATTTAAGGGTAAAAGATTGGATGGTGGCTTT
128 AGATTGGATGATGGCTTCAATCTACC-CGTCTAGATTTAAGGATAAAAGATTGGATGGTGGCTTC
* * * * * * * * * *
16902178 AATCTACCCTTTTGGATTAGGGGTAAAAGGTTGGATGGCTTCAATTTGCCTTTTTGGATTTAGGG
192 AATCTACCCCTATAGATTAGGAGTAAAAGATTGGATGGCTTCAATCTACCTCTCTAGATTTAGGG
16902243 GTAAAAGATTGGATA
257 GTAAAAGATTGGATA
* * * * * * *
16902258 GTGGCTTTAATCTACCTCTTTGGA-TTAGGGGTAAATGATTGG-T-TGACTTCAATCTGCCCCTC
1 GTGGCTTCAATCTGCCCCTTTGGATTTAAGGTTAAAAGATTGGATGTGGCTTCAATCTGCCCCTC
*
16902320 TAGATTTAGGGGTAGAAGATTAGATGGTG
66 TAGATTTAGGGGTAAAAGATTAGATGGTG
16902349 TTGTAACTTC
Statistics
Matches: 316, Mismatches: 41, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
268 44 0.14
270 1 0.00
271 15 0.05
272 58 0.18
274 1 0.00
275 189 0.60
276 8 0.03
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (271 bp):
GTGGCTTCAATCTGCCCCTTTGGATTTAAGGTTAAAAGATTGGATGTGGCTTCAATCTGCCCCTC
TAGATTTAGGGGTAAAAGATTAGATGGTGGCTTCAACCTGCCCCTCTAGATTTAGGGGTAAAAGA
TTGGATGATGGCTTCAATCTACCCGTCTAGATTTAAGGATAAAAGATTGGATGGTGGCTTCAATC
TACCCCTATAGATTAGGAGTAAAAGATTGGATGGCTTCAATCTACCTCTCTAGATTTAGGGGTAA
AAGATTGGATA
Found at i:16903271 original size:12 final size:13
Alignment explanation
Indices: 16903250--16903281 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16903240 TCCTATTTTT
16903250 TCTT-TTTCTTTC
1 TCTTCTTTCTTTC
16903262 T-TTCTTTCTTTC
1 TCTTCTTTCTTTC
16903274 TCTTCTTT
1 TCTTCTTT
16903282 TTTTAGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 10 0.56
13 6 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TCTTCTTTCTTTC
Found at i:16903271 original size:18 final size:17
Alignment explanation
Indices: 16903248--16903281 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16903238 ACTCCTATTT
*
16903248 TTTCTTTTTCTTTCTTTC
1 TTTCTTTCTC-TTCTTTC
16903266 TTTCTTTCTCTTCTTT
1 TTTCTTTCTCTTCTTT
16903282 TTTTAGGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTCTCTTCTTTC
Found at i:16905282 original size:52 final size:52
Alignment explanation
Indices: 16905204--16905338 Score: 252
Period size: 52 Copynumber: 2.6 Consensus size: 52
16905194 TAAATGAAAA
*
16905204 AGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTAAG
16905256 AGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTAAG
1 AGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTAAG
*
16905308 AGGTCCGATGACTATGTGTCATTATGAGTAT
1 AGGTCCGATGACTATGTGTCATTGTGAGTAT
16905339 TAATTGAAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 81 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTAAG
Found at i:16916002 original size:70 final size:69
Alignment explanation
Indices: 16915866--16916002 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
16915856 CACAGAACAA
* *
16915866 AATGAATTTAAGAATGATTGATTGTATGGTATGAGTATGAAAAAATGTTTGTCAAATTGGACAAG
1 AATGAATTTAAGAATGATTAATTGTATGATATGAGTATGAAAAAATGTTTGTCAAATTGGACAAG
16915931 AACG
66 AACG
* * *
16915935 AATGAATTTAAGAATGATTAATTGTGTAGAT-TGAGTAT-AAACGAAATGTTTGTTAAATTGGAT
1 AATGAATTTAAGAATGATTAATTGTAT-GATATGAGTATGAAA--AAATGTTTGTCAAATTGGAC
16915998 AAGAA
63 AAGAA
16916003 TGAAAGAGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
68 3 0.05
69 32 0.53
70 25 0.42
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.34
Consensus pattern (69 bp):
AATGAATTTAAGAATGATTAATTGTATGATATGAGTATGAAAAAATGTTTGTCAAATTGGACAAG
AACG
Found at i:16918876 original size:37 final size:37
Alignment explanation
Indices: 16918826--16919009 Score: 217
Period size: 37 Copynumber: 5.0 Consensus size: 37
16918816 TTCCTAACAG
* * ** *
16918826 GCTATGTGACTAGCAGGCTTTGTGCTGGTGTATTCGA
1 GCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCGA
* *
16918863 GCTATGTGCCTAGCAGGCTTCGTGCCAGTGTATTCGG
1 GCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCGA
* * *
16918900 GCTATGTGTCTAGCAGACTTCGTGCCGGTGTAATC-A
1 GCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCGA
* * * *
16918936 TGCTATGTGCCTAGTAGGATTTGTGCCAGTGTAATCAA
1 -GCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCGA
*
16918974 GCTATGTGCCTAGCAGGCTTCATGCCAGTGTAATCG
1 GCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCG
16919010 GACTATTGTC
Statistics
Matches: 124, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
37 123 0.99
38 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (37 bp):
GCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCGA
Found at i:16919033 original size:74 final size:73
Alignment explanation
Indices: 16918826--16919036 Score: 228
Period size: 74 Copynumber: 2.8 Consensus size: 73
16918816 TTCCTAACAG
* * * * *
16918826 GCTATGTGACTAGCAGGCTTTGTGCTGGTGTATTCGAGCTATGTGCCTAGCAGGCTTCGTGCCAG
1 GCTATGTGACTAGCAGGCTTCGTGCCGGTGTAATCGA-CTATGTGCCTAGTAGGCTTTGTGCCAG
* **
16918891 TGTATTCGG
65 TGTAATCAA
* * *
16918900 GCTATGTGTCTAGCAGACTTCGTGCCGGTGTAATC-ATGCTATGTGCCTAGTAGGATTTGTGCCA
1 GCTATGTGACTAGCAGGCTTCGTGCCGGTGTAATCGA--CTATGTGCCTAGTAGGCTTTGTGCCA
16918964 GTGTAATCAA
64 GTGTAATCAA
* * * *
16918974 GCTATGTGCCTAGCAGGCTTCATGCCAGTGTAATCGGACTAT-TGTCTAGTAGGCCTTTGTGCC
1 GCTATGTGACTAGCAGGCTTCGTGCCGGTGTAATC-GACTATGTGCCTAGTAGG-CTTTGTGCC
16919037 GGTGATTCAA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
73 11 0.09
74 104 0.90
76 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (73 bp):
GCTATGTGACTAGCAGGCTTCGTGCCGGTGTAATCGACTATGTGCCTAGTAGGCTTTGTGCCAGT
GTAATCAA
Found at i:16919036 original size:111 final size:111
Alignment explanation
Indices: 16918826--16919040 Score: 297
Period size: 111 Copynumber: 1.9 Consensus size: 111
16918816 TTCCTAACAG
* ** * * *
16918826 GCTATGTGACTAGCAGGCTTTGTGCTGGTGTATTCGAGCTATGTGCCTAGCAGGCTTCGTGCCAG
1 GCTATGTGACTAGCAGGATTTGTGCCAGTGTAATCAAGCTATGTGCCTAGCAGGCTTCATGCCAG
* *
16918891 TGTATTCGGGCTATGTGTCTAGCAGACTTCGTGCCGGTGTAATCAT
66 TGTAATCGGACTATGTGTCTAGCAGACTTCGTGCCGGTGTAATCAT
* *
16918937 GCTATGTGCCTAGTAGGATTTGTGCCAGTGTAATCAAGCTATGTGCCTAGCAGGCTTCATGCCAG
1 GCTATGTGACTAGCAGGATTTGTGCCAGTGTAATCAAGCTATGTGCCTAGCAGGCTTCATGCCAG
* * *
16919002 TGTAATCGGACTAT-TGTCTAGTAGGCCTTTGTGCCGGTG
66 TGTAATCGGACTATGTGTCTAGCA-GACTTCGTGCCGGTG
16919041 ATTCAAGAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 8 0.09
111 82 0.91
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (111 bp):
GCTATGTGACTAGCAGGATTTGTGCCAGTGTAATCAAGCTATGTGCCTAGCAGGCTTCATGCCAG
TGTAATCGGACTATGTGTCTAGCAGACTTCGTGCCGGTGTAATCAT
Found at i:16940962 original size:42 final size:42
Alignment explanation
Indices: 16940883--16940992 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 42
16940873 CGAAACAAGC
* * * *
16940883 ATGAGGATAT-ATTTAAGGAAGACTCGTGTCTTAGGATGAGA
1 ATGAGAATATGATTAAAGGAAGACTCATGTCCTAGGATGAGA
*
16940924 ATGAGAATATGATTAAAGGAAGACTCATGTCCTGGGATGAGA
1 ATGAGAATATGATTAAAGGAAGACTCATGTCCTAGGATGAGA
*
16940966 ATGAGAATAAGATTAAAGGAAGACTCA
1 ATGAGAATATGATTAAAGGAAGACTCA
16940993 GGACTCGGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 9 0.15
42 53 0.85
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (42 bp):
ATGAGAATATGATTAAAGGAAGACTCATGTCCTAGGATGAGA
Found at i:16941024 original size:42 final size:42
Alignment explanation
Indices: 16940918--16941024 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
16940908 GTGTCTTAGG
* * *
16940918 ATGAGAATGAGAATATGATTAAAGGAAGACTCATGTCCTGGG
1 ATGAGAATGAGAATATGATTAAAGGAAGACTCAGGACCTGGA
*
16940960 ATGAGAATGAGAATAAGATTAAAGGAAGACTCAGGA-CTCGGA
1 ATGAGAATGAGAATATGATTAAAGGAAGACTCAGGACCT-GGA
** * *
16941002 ATGAGCGTGAGATTATGTTTAAA
1 ATGAGAATGAGAATATGATTAAA
16941025 AAGTAAGTCT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.04
42 53 0.96
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.23
Consensus pattern (42 bp):
ATGAGAATGAGAATATGATTAAAGGAAGACTCAGGACCTGGA
Found at i:16941449 original size:15 final size:16
Alignment explanation
Indices: 16941420--16941464 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
16941410 TAGTCAAAAA
16941420 TTGTTATTTTCTTA-TTT
1 TTGTT-TTTT-TTATTTT
16941437 TTGTTTTTTTTATTTT
1 TTGTTTTTTTTATTTT
*
16941453 TTATTTTTTTTA
1 TTGTTTTTTTTA
16941465 AGTTGTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 18 0.69
17 5 0.19
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.82
Consensus pattern (16 bp):
TTGTTTTTTTTATTTT
Found at i:16941452 original size:7 final size:7
Alignment explanation
Indices: 16941423--16941461 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
16941413 TCAAAAATTG
16941423 TTATTTT
1 TTATTTT
16941430 CTTATTTT
1 -TTATTTT
*
16941438 TGTTTTTT
1 T-TATTTT
16941446 TTATTTT
1 TTATTTT
16941453 TTATTTT
1 TTATTTT
16941460 TT
1 TT
16941462 TTAAGTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:16954132 original size:42 final size:42
Alignment explanation
Indices: 16954029--16954138 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
16954019 GGATATATTT
** * *
16954029 AGGGAAGACTCATGTCTCAAGATGAGAATGAGAATATGATTAA
1 AGGG-AGACTCATGTCTCGGGATGAGAATGAGAATAAGACTAA
*
16954072 AGGAAGACTCATGTCTCGGGATGAGAACT-AGAATAAGACTAA
1 AGGGAGACTCATGTCTCGGGATGAGAA-TGAGAATAAGACTAA
* *
16954114 AGGGAGACTCATGACTCGGAATGAG
1 AGGGAGACTCATGTCTCGGGATGAG
16954139 CGTGAGATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (42 bp):
AGGGAGACTCATGTCTCGGGATGAGAATGAGAATAAGACTAA
Found at i:16955757 original size:37 final size:37
Alignment explanation
Indices: 16955707--16955852 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
16955697 AAGAAATTCG
* * * *
16955707 GGCTATGTGCCTAGCAGGCTTTGTGTCAATGTATTCA
1 GGCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCA
* * *
16955744 GGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTAATCG
1 GGCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCA
16955781 GGCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCA
1 GGCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCA
**
16955818 GGCTATGTGCCTAGCAGGCTTCGTGCTGGTGTAAT
1 GGCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAAT
16955853 TGGACTATAT
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.16, C:0.21, G:0.32, T:0.31
Consensus pattern (37 bp):
GGCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCA
Found at i:16955825 original size:74 final size:74
Alignment explanation
Indices: 16955704--16955873 Score: 250
Period size: 74 Copynumber: 2.3 Consensus size: 74
16955694 TCTAAGAAAT
* * * *
16955704 TCGGGCTATGTGCCTAGCAGGCTTTGTGTCAATGTATTCAGGCTATGTGCCTAGTAGGCTTCGTG
1 TCGGGCTATGTGCCTAGCAGGCTTCGTGCCAATGTAATCAGGCTATGTGCCTAGCAGGCTTCGTG
16955769 CCGGTGTAA
66 CCGGTGTAA
*
16955778 TCGGGCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCAGGCTATGTGCCTAGCAGGCTTCGTG
1 TCGGGCTATGTGCCTAGCAGGCTTCGTGCCAATGTAATCAGGCTATGTGCCTAGCAGGCTTCGTG
*
16955843 CTGGTGTAA
66 CCGGTGTAA
* * * *
16955852 TTGGACTATATGTCTAGCAGGC
1 TCGGGCTATGTGCCTAGCAGGC
16955874 CTTTGTGTCG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 86 1.00
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (74 bp):
TCGGGCTATGTGCCTAGCAGGCTTCGTGCCAATGTAATCAGGCTATGTGCCTAGCAGGCTTCGTG
CCGGTGTAA
Found at i:16955869 original size:37 final size:36
Alignment explanation
Indices: 16955707--16955873 Score: 190
Period size: 37 Copynumber: 4.5 Consensus size: 36
16955697 AAGAAATTCG
* * ** *
16955707 GGCTATGTGCCTAGCAGGCTTTGTGTCAATGTATTCA
1 GGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAAT-A
* *
16955744 GGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTAATCG
1 GGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAAT-A
*
16955781 GGCTATGTGCCTAGCAGGCTTCGTGCCAGTGTAATCA
1 GGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAAT-A
* *
16955818 GGCTATGTGCCTAGCAGGCTTCGTGCTGGTGTAATT
1 GGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAATA
* *
16955854 GGACTATATGTCTAGCAGGC
1 GG-CTATGTGCCTAGCAGGC
16955874 CTTTGTGTCG
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
36 2 0.02
37 112 0.98
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (36 bp):
GGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAATA
Found at i:16963030 original size:52 final size:52
Alignment explanation
Indices: 16962952--16963190 Score: 397
Period size: 52 Copynumber: 4.6 Consensus size: 52
16962942 TAAATGAAAA
* * *
16962952 AGGTCTGATGATTATATGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
16963004 AGGTCCGGTGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
16963056 AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
16963108 AGGTCTGATGACTATGTGTCATCGTGAGTATATGATTCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
16963160 AGGTTCGATGACAATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
16963191 TAAATGAGAA
Statistics
Matches: 175, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 175 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:16963996 original size:21 final size:21
Alignment explanation
Indices: 16963945--16963998 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
16963935 AGCAAGACTT
* * *
16963945 GTATCGATAGAAGAGTCACTT
1 GTATCGGTAGAACAGTCACTG
** *
16963966 GTATTAGTAGAACTGTCACTG
1 GTATCGGTAGAACAGTCACTG
16963987 GTATCGGTAGAA
1 GTATCGGTAGAA
16963999 GTCTGCACTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATCGGTAGAACAGTCACTG
Found at i:16965127 original size:20 final size:20
Alignment explanation
Indices: 16965102--16965142 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
16965092 CACAACATGC
16965102 AGAGAATGCGTTCTATGTTA
1 AGAGAATGCGTTCTATGTTA
16965122 AGAGAATGCGTTCTATGTTA
1 AGAGAATGCGTTCTATGTTA
16965142 A
1 A
16965143 TAACATCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
AGAGAATGCGTTCTATGTTA
Found at i:16968960 original size:18 final size:18
Alignment explanation
Indices: 16968917--16968965 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16968907 TGTCCCTAAA
*
16968917 ATTTTTCTATTTACTTTT
1 ATTTTTTTATTTACTTTT
*
16968935 -TTTATTTTATTTTCTTTT
1 ATTT-TTTTATTTACTTTT
*
16968953 ATTTTTTTCTTTA
1 ATTTTTTTATTTA
16968966 GTTCTTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTTTTTATTTACTTTT
Found at i:16970782 original size:9 final size:9
Alignment explanation
Indices: 16970740--16970783 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
16970730 GGAGAAGGCC
*
16970740 GAAGAAAAA
1 GAAGAGAAA
16970749 GAAGAAGAAA
1 GAAG-AGAAA
16970759 GAA-AGAAA
1 GAAGAGAAA
*
16970767 GATGAGAAA
1 GAAGAGAAA
16970776 GAAGAGAA
1 GAAGAGAA
16970784 CTTTGTCGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 7 0.23
9 16 0.53
10 7 0.23
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (9 bp):
GAAGAGAAA
Found at i:16978003 original size:37 final size:37
Alignment explanation
Indices: 16977944--16978076 Score: 176
Period size: 37 Copynumber: 3.6 Consensus size: 37
16977934 TCTAAGAAAT
* * * **
16977944 TCAGACTATGTGCCTAGTAGGCTCCGTGCCGGTGTGT
1 TCAGGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAA
**
16977981 TTGGGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAA
1 TCAGGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAA
*
16978018 TCAGGCTATGTGCCTAGCAGGCTTCATGCCGGTGTAA
1 TCAGGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAA
* *
16978055 TCAGACTATGTGTCTAGCAGGC
1 TCAGGCTATGTGCCTAGCAGGC
16978077 CTTTGTGTCG
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.17, C:0.23, G:0.32, T:0.29
Consensus pattern (37 bp):
TCAGGCTATGTGCCTAGCAGGCTTCGTGCCGGTGTAA
Found at i:16985686 original size:272 final size:271
Alignment explanation
Indices: 16985201--16985726 Score: 840
Period size: 272 Copynumber: 1.9 Consensus size: 271
16985191 GAGTTATTAA
* *
16985201 AATTCGAAAAATAAACTCGATTCAAACTCAAAATTCGAAAAAAAATTTGAATTGACTCGATTAAC
1 AATTCGAAAAATAAACTCGATTCAAACTCAAAATTCGAAAAAAAATTCGAATTAACTCGATTAAC
* *
16985266 TCGATTCGAATAATTCGAAATTTAATTTTTTTTTCTATTTTTTCGAGTCGAATCGAATTTTGCTC
66 TCGATTCGAATAATTCAAAATTTAATTTTTTTTTCGATTTTTTCGAGTCGAATCGAATTTTGCTC
* *
16985331 ACCTCTAAACACAAGGCATTTCAATCTTTCAAGTATTTGACTATAAGTTGTTTAAAAAGGCTTAT
131 ACCTCTAAACAAAAGGCATCTCAATCTTTCAAGTATTTGACTATAAGTTGTTTAAAAAGGCTTAT
* * *
16985396 CTTGTTGCTATTATAGCCACTTCACCGTAGCAAACACTACCAATTTGATTTTCCTTCAAATTATT
196 ATTGTTGCTATTATAGCCACTTCACCGCAGCAAACACTACCAATTCGATTTTCCTTCAAATTATT
16985461 CGTGTTATTCG
261 CGTGTTATTCG
* ** * * *
16985472 AATTCGAAAAATAAACTTGATTTGAACTCGAAATTCGAAAAAAAAATTCGAGTTAACTTGATTAA
1 AATTCGAAAAATAAACTCGATTCAAACTCAAAATTCG-AAAAAAAATTCGAATTAACTCGATTAA
*
16985537 CTCGATTCGAATAATTCAAAATTTGAA-TTTTTTTTCGATTTTTTTGAGTCGAATCGAATTTTGC
65 CTCGATTCGAATAATTCAAAATTT-AATTTTTTTTTCGATTTTTTCGAGTCGAATCGAATTTTGC
*
16985601 TCAGGC-CTAAACAAAAGGCATCTCAATCTTTCAAGTATTTGACTATAAGTTGTTTAAAAAGGCT
129 TCA-CCTCTAAACAAAAGGCATCTCAATCTTTCAAGTATTTGACTATAAGTTGTTTAAAAAGGCT
* *
16985665 TATATTGTTTCTATTATAGCCACTTCATCGCAGCAAACACTACCAATTCGATTTTCCTTCAA
193 TATATTGTTGCTATTATAGCCACTTCACCGCAGCAAACACTACCAATTCGATTTTCCTTCAA
16985727 CCCTGCAAAT
Statistics
Matches: 233, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
271 33 0.14
272 197 0.85
273 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (271 bp):
AATTCGAAAAATAAACTCGATTCAAACTCAAAATTCGAAAAAAAATTCGAATTAACTCGATTAAC
TCGATTCGAATAATTCAAAATTTAATTTTTTTTTCGATTTTTTCGAGTCGAATCGAATTTTGCTC
ACCTCTAAACAAAAGGCATCTCAATCTTTCAAGTATTTGACTATAAGTTGTTTAAAAAGGCTTAT
ATTGTTGCTATTATAGCCACTTCACCGCAGCAAACACTACCAATTCGATTTTCCTTCAAATTATT
CGTGTTATTCG
Found at i:16991708 original size:5 final size:5
Alignment explanation
Indices: 16991700--16991731 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
16991690 AAAATAAAAA
16991700 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG GG
1 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG GG
16991732 AAGGAGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.81, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:16996130 original size:41 final size:41
Alignment explanation
Indices: 16996069--16996164 Score: 158
Period size: 41 Copynumber: 2.3 Consensus size: 41
16996059 TACTTTTATT
16996069 TTAACACA-AATTCTAATCACCCAATTCTAACAATCTCCACC
1 TTAACA-AGAATTCTAATCACCCAATTCTAACAATCTCCACC
*
16996110 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAATCACCCAATTCTAACAATCTCCACC
*
16996151 TTGACAAGAATTCT
1 TTAACAAGAATTCT
16996165 CTACGAACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 1 0.02
41 51 0.98
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (41 bp):
TTAACAAGAATTCTAATCACCCAATTCTAACAATCTCCACC
Found at i:16996176 original size:17 final size:17
Alignment explanation
Indices: 16996154--16996192 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
16996144 CTCCACCTTG
* *
16996154 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
16996171 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
16996188 ACAAG
1 ACAAG
16996193 TTCTTCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:17002284 original size:19 final size:19
Alignment explanation
Indices: 17002260--17002329 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
17002250 GCAGTATATT
*
17002260 GCTCTTACGAGCTAGTATC
1 GCTCTTACGAGCCAGTATC
* *
17002279 GCTCTTATGAGCCAGTATT
1 GCTCTTACGAGCCAGTATC
** *
17002298 GCTCCAACAAGCCAGTAT-
1 GCTCTTACGAGCCAGTATC
**
17002316 GCTCCAACGAGCCA
1 GCTCTTACGAGCCA
17002330 ATATGCTCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 13 0.30
19 30 0.70
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (19 bp):
GCTCTTACGAGCCAGTATC
Found at i:17002320 original size:18 final size:18
Alignment explanation
Indices: 17002288--17002408 Score: 109
Period size: 18 Copynumber: 6.7 Consensus size: 18
17002278 CGCTCTTATG
*
17002288 AGCCAGTATTGCTCCAACA
1 AGCCAGTA-TGCTCAAACA
* *
17002307 AGCCAGTATGCTCCAACG
1 AGCCAGTATGCTCAAACA
* **
17002325 AGCCAATATGCTCAAATG
1 AGCCAGTATGCTCAAACA
* **
17002343 AGCCGGTATGCTCAAATG
1 AGCCAGTATGCTCAAACA
* *
17002361 AGCCGGTGTGCTCAAACGA
1 AGCCAGTATGCTCAAAC-A
*
17002380 A-CCGGTATGCTCAAACA
1 AGCCAGTATGCTCAAACA
17002397 AGCCAGTATGCT
1 AGCCAGTATGCT
17002409 ATTCCTTCCG
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
17 2 0.02
18 78 0.88
19 9 0.10
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (18 bp):
AGCCAGTATGCTCAAACA
Found at i:17002352 original size:36 final size:36
Alignment explanation
Indices: 17002287--17002408 Score: 136
Period size: 36 Copynumber: 3.4 Consensus size: 36
17002277 TCGCTCTTAT
* * * *
17002287 GAGCCAGTATTGCTCCAACAAGCCAGTATGCTCCAAC
1 GAGCCAGTA-TGCTCAAACGAGCCGGTATGCTCAAAC
* * *
17002324 GAGCCAATATGCTCAAATGAGCCGGTATGCTCAAAT
1 GAGCCAGTATGCTCAAACGAGCCGGTATGCTCAAAC
* * *
17002360 GAGCCGGTGTGCTCAAACGAACCGGTATGCTCAAAC
1 GAGCCAGTATGCTCAAACGAGCCGGTATGCTCAAAC
*
17002396 AAGCCAGTATGCT
1 GAGCCAGTATGCT
17002409 ATTCCTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
36 61 0.88
37 8 0.12
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (36 bp):
GAGCCAGTATGCTCAAACGAGCCGGTATGCTCAAAC
Found at i:17004745 original size:6 final size:6
Alignment explanation
Indices: 17004734--17004767 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
17004724 AATGAAGGAA
*
17004734 GAAGAT GAAGAT GACGAT GAAGAT GAAGAT GAAG
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAG
17004768 CTGGGGGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.35, T:0.15
Consensus pattern (6 bp):
GAAGAT
Found at i:17006918 original size:37 final size:36
Alignment explanation
Indices: 17006867--17006977 Score: 115
Period size: 37 Copynumber: 3.0 Consensus size: 36
17006857 ATTCCAAAAA
*
17006867 TAATATTATTTTAATAATTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAATTTAATATT-AATTTAATAT
17006903 TAATACTTATCTTAATAGTATTT--TATTAATTTAATAT
1 TAATA-TTATCTTAATA--ATTTAATATTAATTTAATAT
17006940 TAAAGTGATTATCTTAAT-ATTTAAT-TTAATTTAATAT
1 T-AA-T-ATTATCTTAATAATTTAATATTAATTTAATAT
17006977 T
1 T
17006978 TATCTTATAG
Statistics
Matches: 65, Mismatches: 1, Indels: 17
0.78 0.01 0.20
Matches are distributed among these distances:
36 17 0.26
37 29 0.45
38 3 0.05
39 15 0.23
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAATTTAATATTAATTTAATAT
Found at i:17006978 original size:17 final size:17
Alignment explanation
Indices: 17006881--17006979 Score: 73
Period size: 17 Copynumber: 5.8 Consensus size: 17
17006871 ATTATTTTAA
*
17006881 TAATTTAATATTAAATT
1 TAATTTAATATTTAATT
*
17006898 TAATTTAATACTT-ATCT
1 TAATTTAATATTTAAT-T
* *
17006915 TAA--TAGTATTTTA-T
1 TAATTTAATATTTAATT
*
17006929 TAATTTAATATTAAAGTGAT
1 TAATTTAATATTTAA-T--T
17006949 T-ATCTTAATATTTAATT
1 TAAT-TTAATATTTAATT
17006966 TAATTTAATATTTA
1 TAATTTAATATTTA
17006980 TCTTATAGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
14 4 0.06
15 6 0.09
16 10 0.16
17 27 0.42
18 2 0.03
19 3 0.05
20 12 0.19
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TAATTTAATATTTAATT
Found at i:17007028 original size:62 final size:60
Alignment explanation
Indices: 17006870--17007090 Score: 168
Period size: 68 Copynumber: 3.6 Consensus size: 60
17006860 CCAAAAATAA
* **
17006870 TATTATTTTAAT-AATTTAATATTAAATTTAATTTAATACTTATCTTAATAG-TATTTTATT
1 TATTATTTTAATAAATTTAATATTAAATTTAATTTAATATTTATCTT-ATAGATA-AATATT
* * * *
17006930 AATTTAATATTAAAGTGATTATCTTAATATTTAATTTAATTTAATATTTATCTTATAGATAAATA
1 TA-TT-AT-TTTAA-T-A-AAT-TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAATA
17006995 TT
59 TT
* *
17006997 CTATTATTTTAATAAGATTTAATATTAAATTTAATCTAGTATTTATC-T-T-GATAAATATT
1 -TATTATTTTAATAA-ATTTAATATTAAATTTAATTTAATATTTATCTTATAGATAAATATT
* *
17007056 ATATTAATTTAAT--ATTAAAGTGATTAAATTTAATT
1 -TATTATTTTAATAAATTTAA-T-ATTAAATTTAATT
17007091 ATAGTTGAAC
Statistics
Matches: 131, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
56 5 0.04
57 1 0.01
58 12 0.09
59 21 0.16
60 2 0.02
61 3 0.02
62 28 0.21
63 7 0.05
64 2 0.02
65 4 0.03
66 2 0.02
67 12 0.09
68 32 0.24
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (60 bp):
TATTATTTTAATAAATTTAATATTAAATTTAATTTAATATTTATCTTATAGATAAATATT
Found at i:17007123 original size:131 final size:125
Alignment explanation
Indices: 17006870--17007099 Score: 286
Period size: 130 Copynumber: 1.8 Consensus size: 125
17006860 CCAAAAATAA
* * *
17006870 TATTATTTTAATAATTTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTT
1 TATTATTTTAATAATTTAATATTAAATTTAATCTAATACTTATCTTAATAATATTATATTAATTT
* * *
17006935 AATATTAAAGTGATTATCTTAATATTTAATTTAATTTAATATTTATCTTATAGATAAATATTC
66 AATATTAAAGTG--TA-CTTAATATTTAATTTAATTGAATATTAATCTCATAGATAAATATTC
* * *
17006998 TATTATTTTAATAAGATTTAATATTAAATTTAATCTAGTATTTATCTTGATAAATATTATATTAA
1 TATTATTTTAAT-A-ATTTAATATTAAATTTAATCTAATACTTATCTTAAT-AATATTATATTAA
*
17007063 TTTAATATTAAAGTG-A-TTAA-ATTTAATTATAGTTGAA
63 TTTAATATTAAAGTGTACTTAATATTTAATT-TAATTGAA
17007100 CTATCTAAAC
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
125 8 0.09
126 10 0.11
128 13 0.14
129 1 0.01
130 32 0.36
131 26 0.29
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (125 bp):
TATTATTTTAATAATTTAATATTAAATTTAATCTAATACTTATCTTAATAATATTATATTAATTT
AATATTAAAGTGTACTTAATATTTAATTTAATTGAATATTAATCTCATAGATAAATATTC
Found at i:17012529 original size:22 final size:23
Alignment explanation
Indices: 17012500--17012545 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
17012490 AAAAAAACCT
17012500 AAAACCTAAAC-AAAA-CCTTAA
1 AAAACCTAAACTAAAACCCTTAA
17012521 AAAACCCTAAACTAAAACCCTTAA
1 AAAA-CCTAAACTAAAACCCTTAA
17012545 A
1 A
17012546 CCTAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 7 0.32
23 4 0.18
24 7 0.32
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (23 bp):
AAAACCTAAACTAAAACCCTTAA
Found at i:17012545 original size:14 final size:14
Alignment explanation
Indices: 17012521--17012553 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
17012511 AAAACCTTAA
17012521 AAAACCCTAAA-CT
1 AAAACCCTAAACCT
17012534 AAAACCCTTAAACCT
1 AAAACCC-TAAACCT
17012549 AAAAC
1 AAAAC
17012554 AAAAAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 4 0.22
15 7 0.39
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAACCCTAAACCT
Found at i:17013940 original size:67 final size:66
Alignment explanation
Indices: 17013739--17014014 Score: 296
Period size: 67 Copynumber: 4.2 Consensus size: 66
17013729 TGTAAAGGGT
* * * * ** *
17013739 TATAATGCGTAAGACCATAGGTCGGCTATGGCAACATAGAGAGTCCTCCATAACATTTAACATGG
1 TATAATGTGTAAGACCATAGTTCGACTATGGCAACATAGAGAGTCCACCAGGACATTAAACAT-G
17013804 GG
65 GG
* * * * *
17013806 TATAATGTTTAAGATCGTAGTT---C-A--GTAACATAGAGAGTTCACCAGGACATTAAACATGG
1 TATAATGTGTAAGACCATAGTTCGACTATGGCAACATAGAGAGTCCACCAGGACATTAAACATGG
17013865 G
66 G
* *
17013866 ATATAATGTGTAAGACCATAGTTTGACTATGGCAACATTA-AGAGTCCGCCAGGACATTAAACAT
1 -TATAATGTGTAAGACCATAGTTCGACTATGGCAACA-TAGAGAGTCCACCAGGACATTAAACAT
17013930 AGGG
64 -GGG
* * * *
17013934 TATAATGTGTAAGACCATAGTTCAAATATGTCAACATAGAGAGTCCACCAAGACATTAAACATGA
1 TATAATGTGTAAGACCATAGTTCGACTATGGCAACATAGAGAGTCCACCAGGACATTAAACATG-
17013999 GG
65 GG
17014001 TATAATGTGTAAGA
1 TATAATGTGTAAGA
17014015 TCTTATGTAA
Statistics
Matches: 175, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
60 3 0.02
61 46 0.26
63 1 0.01
64 2 0.01
65 1 0.01
66 3 0.02
67 114 0.65
68 5 0.03
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (66 bp):
TATAATGTGTAAGACCATAGTTCGACTATGGCAACATAGAGAGTCCACCAGGACATTAAACATGG
G
Found at i:17014533 original size:19 final size:19
Alignment explanation
Indices: 17014506--17014557 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
17014496 AAGAGGAAGA
*
17014506 AACTAAGTAAGTTCGATAG
1 AACTTAGTAAGTTCGATAG
17014525 AACTTAGTAAGTTCGATAG
1 AACTTAGTAAGTTCGATAG
*
17014544 AACTTAGTGAGTTC
1 AACTTAGTAAGTTC
17014558 CCGGTAGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (19 bp):
AACTTAGTAAGTTCGATAG
Found at i:17014858 original size:18 final size:18
Alignment explanation
Indices: 17014835--17014873 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17014825 TGCATTGTTA
17014835 TTTTTCACACATACACCC
1 TTTTTCACACATACACCC
* *
17014853 TTTTTCCCACATACATCC
1 TTTTTCACACATACACCC
17014871 TTT
1 TTT
17014874 CTTGTGCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTTTCACACATACACCC
Found at i:17016216 original size:27 final size:27
Alignment explanation
Indices: 17016186--17016253 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
17016176 ATAGTTTGTT
* *
17016186 GGGACAATAAAAATGGGGTAGTCCGTC
1 GGGACAATAAAAACGGGATAGTCCGTC
** *
17016213 GGGACAATAAACGCGGGATAGTCCGTT
1 GGGACAATAAAAACGGGATAGTCCGTC
17016240 GGGACAATAAAAAC
1 GGGACAATAAAAAC
17016254 ATGATAGTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.31, T:0.16
Consensus pattern (27 bp):
GGGACAATAAAAACGGGATAGTCCGTC
Found at i:17016259 original size:27 final size:27
Alignment explanation
Indices: 17016183--17016261 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
17016173 TAGATAGTTT
** *
17016183 GTTGGGACAATAAAAATGGGGTAGTCC
1 GTTGGGACAATAAAAACAGGATAGTCC
* ** *
17016210 GTCGGGACAATAAACGCGGGATAGTCC
1 GTTGGGACAATAAAAACAGGATAGTCC
*
17016237 GTTGGGACAATAAAAACATGATAGT
1 GTTGGGACAATAAAAACAGGATAGT
17016262 TCACCGAGAC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.20
Consensus pattern (27 bp):
GTTGGGACAATAAAAACAGGATAGTCC
Found at i:17019424 original size:7 final size:8
Alignment explanation
Indices: 17019385--17019437 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 8
17019375 CGGCACAAAA
17019385 TCTTCTTC
1 TCTTCTTC
*
17019393 ATTTTCTTC
1 -TCTTCTTC
*
17019402 TCTTCCT-
1 TCTTCTTC
17019409 TCTTCTTC
1 TCTTCTTC
17019417 TCTT-TTC
1 TCTTCTTC
17019424 TCTTCTTCC
1 TCTTCTT-C
17019433 TCTTC
1 TCTTC
17019438 AACACCCACA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 13 0.35
8 11 0.30
9 13 0.35
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (8 bp):
TCTTCTTC
Found at i:17019427 original size:15 final size:16
Alignment explanation
Indices: 17019396--17019436 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
17019386 CTTCTTCATT
17019396 TTCTTCTC-TTCCTTC
1 TTCTTCTCTTTCCTTC
*
17019411 TTCTTCTCTTTTC-TC
1 TTCTTCTCTTTCCTTC
17019426 TTCTTCCTCTT
1 TTCTT-CTCTT
17019437 CAACACCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (16 bp):
TTCTTCTCTTTCCTTC
Found at i:17032191 original size:9 final size:9
Alignment explanation
Indices: 17032169--17032236 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
17032159 CCCAAATATT
17032169 TAAAAATTA
1 TAAAAATTA
17032178 T-AAAATTA
1 TAAAAATTA
*
17032186 TAAAAAATA
1 TAAAAATTA
* *
17032195 GAAAAAATA
1 TAAAAATTA
* *
17032204 AAAAAATCA
1 TAAAAATTA
17032213 TAAAAACTTA
1 TAAAAA-TTA
* *
17032223 -GAAAAGTA
1 TAAAAATTA
17032231 TAAAAA
1 TAAAAA
17032237 AAATATTTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
8 10 0.22
9 34 0.74
10 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (9 bp):
TAAAAATTA
Found at i:17032201 original size:27 final size:28
Alignment explanation
Indices: 17032170--17032238 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
17032160 CCAAATATTT
* * *
17032170 AAAAATTATAAAATTATAAAAA-ATAGA
1 AAAAATAAAAAAATCATAAAAACATAGA
*
17032197 AAAAATAAAAAAATCATAAAAACTTAGA
1 AAAAATAAAAAAATCATAAAAACATAGA
*
17032225 AAAGTATAAAAAAA
1 AAA-AATAAAAAAA
17032239 ATATTTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 19 0.54
28 7 0.20
29 9 0.26
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.20
Consensus pattern (28 bp):
AAAAATAAAAAAATCATAAAAACATAGA
Found at i:17032266 original size:20 final size:21
Alignment explanation
Indices: 17032234--17032272 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
17032224 AAAAGTATAA
17032234 AAAAAATATTTTTAAAATTAT
1 AAAAAATATTTTTAAAATTAT
17032255 AAAAAATA-TTTTAAAATT
1 AAAAAATATTTTTAAAATT
17032273 TTTATAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAAATATTTTTAAAATTAT
Found at i:17032604 original size:4 final size:4
Alignment explanation
Indices: 17032595--17032762 Score: 153
Period size: 4 Copynumber: 41.8 Consensus size: 4
17032585 AATTAAAAAA
* * *
17032595 TATT TATT TA-- TATT TATT TATA TATA T-TT TAGT TATT TATTT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TA-TT TATT
* * * **
17032641 TATT TAGT TATT TATT TACT TATT TAGT TATT TAGA TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * * * *
17032689 TAGT TAGT TATTT TATT TATT TATT TAGT TATTT TGTT TATT TAGT TATTT
1 TATT TATT TA-TT TATT TATT TATT TATT TA-TT TATT TATT TATT TA-TT
*
17032740 TATT TATT TAGT TATT TATT TAT
1 TATT TATT TATT TATT TATT TAT
17032763 ATTGTAAAAT
Statistics
Matches: 133, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
2 2 0.02
3 2 0.02
4 117 0.88
5 12 0.09
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.68
Consensus pattern (4 bp):
TATT
Found at i:17033319 original size:18 final size:18
Alignment explanation
Indices: 17033296--17033330 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17033286 GTCTGTCCCG
17033296 ACATCGACATTTGCATCC
1 ACATCGACATTTGCATCC
17033314 ACATCGACATTTGCATC
1 ACATCGACATTTGCATC
17033331 GGGGTGTAGT
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:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (18 bp):
ACATCGACATTTGCATCC
Found at i:17041552 original size:33 final size:33
Alignment explanation
Indices: 17041510--17041575 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
17041500 CCATTTCTAG
17041510 CATGCATTTTTAGCATTTCATACTTAGAATGTA
1 CATGCATTTTTAGCATTTCATACTTAGAATGTA
*
17041543 CATGCATTTTTAGCATTTCATACTTAGGATGTA
1 CATGCATTTTTAGCATTTCATACTTAGAATGTA
17041576 TATTTTCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
CATGCATTTTTAGCATTTCATACTTAGAATGTA
Found at i:17051443 original size:16 final size:17
Alignment explanation
Indices: 17051411--17051474 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
17051401 TATATATGTA
17051411 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
17051428 TAATAATTAT-TAAAA-
1 TAATAAATATATAAAAT
* *
17051443 TATATAAA-ATTTAAATT
1 TA-ATAAATATATAAAAT
17051460 TAATGAAA-ATATAAA
1 TAAT-AAATATATAAA
17051475 TATATAGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 4 0.10
16 15 0.38
17 20 0.51
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:17051468 original size:26 final size:25
Alignment explanation
Indices: 17051415--17051472 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
17051405 TATGTATAAT
*
17051415 AAATATATAAAATTAATAATTATTA
1 AAATATATAAAATTAATAATTATGA
*
17051440 AAATATATAAAATTTAA-ATTTAATGA
1 AAATATATAAAA-TTAATAATT-ATGA
17051466 AAATATA
1 AAATATA
17051473 AATATATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATATATAAAATTAATAATTATGA
Found at i:17053162 original size:22 final size:23
Alignment explanation
Indices: 17053134--17053184 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
17053124 AATTTTGTCA
17053134 ATTTTAACTT-TTAT-TCAAAAAT
1 ATTTTAACTTGTTATATC-AAAAT
*
17053156 ATTTTAATTTGTTATATCAAAAT
1 ATTTTAACTTGTTATATCAAAAT
17053179 ATTTTA
1 ATTTTA
17053185 TCAAATAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 9 0.35
23 15 0.58
24 2 0.08
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTTAACTTGTTATATCAAAAT
Found at i:17053263 original size:58 final size:58
Alignment explanation
Indices: 17053198--17053314 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
17053188 AATAAAGTTT
17053198 AGTTTAACAATCTCCCCCTTTTTGATATAACAAAACTTTATGAAAAAATTATTTTTGA
1 AGTTTAACAATCTCCCCCTTTTTGATATAACAAAACTTTATGAAAAAATTATTTTTGA
* * *
17053256 AGTTTAACAATCTCCCCCTTTTTGATATAACAAAACTTTGTGAAAAATTTGTTTTTGA
1 AGTTTAACAATCTCCCCCTTTTTGATATAACAAAACTTTATGAAAAAATTATTTTTGA
17053314 A
1 A
17053315 TAAATGCTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (58 bp):
AGTTTAACAATCTCCCCCTTTTTGATATAACAAAACTTTATGAAAAAATTATTTTTGA
Found at i:17061581 original size:20 final size:21
Alignment explanation
Indices: 17061558--17061596 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
17061548 TAGTACAAGT
*
17061558 ATTTTGACATG-TTTAAAAGC
1 ATTTTAACATGATTTAAAAGC
*
17061578 ATTTTAACTTGATTTAAAA
1 ATTTTAACATGATTTAAAA
17061597 TTTGAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (21 bp):
ATTTTAACATGATTTAAAAGC
Found at i:17061708 original size:22 final size:24
Alignment explanation
Indices: 17061680--17061723 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
17061670 AATTTTGTCA
17061680 ATTTTAATTTA-TAT-TCAAAAAC
1 ATTTTAATTTATTATATCAAAAAC
17061702 ATTTTAATTTATTATATCAAAA
1 ATTTTAATTTATTATATCAAAA
17061724 TATTTTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.55
23 3 0.15
24 6 0.30
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTTTAATTTATTATATCAAAAAC
Found at i:17064553 original size:17 final size:17
Alignment explanation
Indices: 17064531--17064567 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17064521 AAGTTGTTTG
17064531 TTTATTTTTC-TTATTTA
1 TTTA-TTTTCGTTATTTA
17064548 TTTATTTTCGTTATTTA
1 TTTATTTTCGTTATTTA
17064565 TTT
1 TTT
17064568 TTATCTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTTTCGTTATTTA
Found at i:17069701 original size:266 final size:267
Alignment explanation
Indices: 17069225--17069761 Score: 950
Period size: 266 Copynumber: 2.0 Consensus size: 267
17069215 ACTTAGATAA
* * * *
17069225 AATCAGAAATCATACTTGCATTTGAGCTAACATATGAACAAAAATTTTCTCTGAACATTATTTTA
1 AATCAGAAACCATACTTGCATTTGAGCCAACATATGAACAAAAATATTCTCTAAACATTATTTTA
* * *
17069290 TTTTAGCATTCTTATGTGTAAACATTGAAACATACTTATGAAAAATTAAAATTTATGCAAATATT
66 TTTCAGCATACTTATGTGTAAACATTGAAACATACATATGAAAAATTAAAATTTATGCAAATATT
17069355 GCCCTACCCCCTCCTTGAAAAGAAGCAATGTCCTCATTGTGTAAACAAAGTAATGAATGAGAACT
131 GCCCTACCCCCTCCTTGAAAAGAAGCAATGTCCTCATTGTGTAAACAAAGTAATGAATGAGAACT
* *
17069420 AAAAACTAGGTAGGTTTGCAAGAAAAGAGAGGTGAGTCATGAAAACTACTTAAGTACCAAGTCTT
196 AAAAACTAAGTAGGTTTGCAAGAAAAGAGAGGTGAGTCATGAAAACTACTTAAGTACCAAATCTT
*
17069485 TCTTAAT
261 TCTCAAT
*
17069492 AATCAGAAACCATACTTGCATTTGAGCCAACTTATGAACAAAAA-ATTCTCTAAACATTATTTTA
1 AATCAGAAACCATACTTGCATTTGAGCCAACATATGAACAAAAATATTCTCTAAACATTATTTTA
17069556 TTTCAGCATACTTATGTGTAAACATTGAAACATACATATGAAAAATTAAAATTTATGCAAATATT
66 TTTCAGCATACTTATGTGTAAACATTGAAACATACATATGAAAAATTAAAATTTATGCAAATATT
17069621 GCCCTACCCCCTCCTTGAAAAGAAGCAATGTCCTCATTGTGTAAACAAAGTAATGAATGAGAACT
131 GCCCTACCCCCTCCTTGAAAAGAAGCAATGTCCTCATTGTGTAAACAAAGTAATGAATGAGAACT
* *
17069686 AAAGACTAAGTAGGTTTGCAAGAGAAGAGAGGTGAGTCATGAAAACTACTTAAGTACCAAATCTT
196 AAAAACTAAGTAGGTTTGCAAGAAAAGAGAGGTGAGTCATGAAAACTACTTAAGTACCAAATCTT
17069751 TCTCAAT
261 TCTCAAT
17069758 AATC
1 AATC
17069762 CAATCCTAGA
Statistics
Matches: 257, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
266 216 0.84
267 41 0.16
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (267 bp):
AATCAGAAACCATACTTGCATTTGAGCCAACATATGAACAAAAATATTCTCTAAACATTATTTTA
TTTCAGCATACTTATGTGTAAACATTGAAACATACATATGAAAAATTAAAATTTATGCAAATATT
GCCCTACCCCCTCCTTGAAAAGAAGCAATGTCCTCATTGTGTAAACAAAGTAATGAATGAGAACT
AAAAACTAAGTAGGTTTGCAAGAAAAGAGAGGTGAGTCATGAAAACTACTTAAGTACCAAATCTT
TCTCAAT
Found at i:17080496 original size:60 final size:59
Alignment explanation
Indices: 17080298--17080620 Score: 279
Period size: 60 Copynumber: 5.4 Consensus size: 59
17080288 AGGGAAAGTT
* * * *
17080298 GGTGTCAGCCATTGC-ATGACCAACA-AAAAAAA--TG-ATTTTTTACCAGATAAAAAAGAG
1 GGTGTCGGCCA-TGCAATGGCCAACACAAAAAAATTTGAATTTTTTATCTGA-AAAAAAG-G
* * *
17080355 GGTGTCGGCCATGCAATGGCCAACAC-CAAAAATTTGGA-TTTTTATCTGACAAAAAGG
1 GGTGTCGGCCATGCAATGGCCAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAAGG
* * * *
17080412 AGGCGTCGGCCATTGC-ATGACCAACACAAAAAAAAATTGAATTTTTTATCTGACAAAAAGG
1 -GGTGTCGGCCA-TGCAATGGCCAACAC-AAAAAAATTTGAATTTTTTATCTGAAAAAAAGG
*
17080473 GGTGTCGGTCATGCAATGGCCAACACCAAAAAAATTTGAAATTTGTTTATCTGAAAAAAAGG
1 GGTGTCGGCCATGCAATGGCCAACA-CAAAAAAATTTG-AATTT-TTTATCTGAAAAAAAGG
** * ** * *
17080535 GGTGTCGATCATTGC-ATGGTCAACACTCAAAAATTTGATTTTTTTATCAT-ATTAAAAAGG
1 GGTGTCGGCCA-TGCAATGGCCAACACAAAAAAATTTGAATTTTTTATC-TGA-AAAAAAGG
* *
17080595 GGTGTCGACCATCCAATGGCCAACAC
1 GGTGTCGGCCATGCAATGGCCAACAC
17080621 CAATTTTTTT
Statistics
Matches: 223, Mismatches: 25, Indels: 33
0.79 0.09 0.12
Matches are distributed among these distances:
56 3 0.01
57 25 0.11
58 26 0.12
59 26 0.12
60 70 0.31
61 35 0.16
62 35 0.16
63 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (59 bp):
GGTGTCGGCCATGCAATGGCCAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAAGG
Found at i:17080536 original size:62 final size:60
Alignment explanation
Indices: 17080332--17080623 Score: 285
Period size: 60 Copynumber: 4.8 Consensus size: 60
17080322 AAAAAAAATG
* * *
17080332 ATTTTTTACCAGATAAAAAAGAGGGTGTCGGCCATGCAATGGCCAACACC--AAAAATTTGG
1 ATTTTTTATCTGA-AAAAAAG-GGGTGTCGGCCATGCAATGGCCAACACCAAAAAAATTTGA
* * * * *
17080392 A-TTTTTATCTGACAAAAAGGAGGCGTCGGCCATTGC-ATGACCAACACAAAAAAAAATTGA
1 ATTTTTTATCTGAAAAAAAGG-GGTGTCGGCCA-TGCAATGGCCAACACCAAAAAAATTTGA
* *
17080452 ATTTTTTATCTGACAAAAAGGGGTGTCGGTCATGCAATGGCCAACACCAAAAAAATTTGAA
1 ATTTTTTATCTGAAAAAAAGGGGTGTCGGCCATGCAATGGCCAACACCAAAAAAATTTG-A
** *
17080513 ATTTGTTTATCTGAAAAAAAGGGGTGTCGATCATTGC-ATGGTCAACACTC--AAAAATTTGA
1 ATTT-TTTATCTGAAAAAAAGGGGTGTCGGCCA-TGCAATGGCCAACAC-CAAAAAAATTTGA
* * * *
17080573 TTTTTTTATCAT-ATTAAAAAGGGGTGTCGACCATCCAATGGCCAACACCAA
1 ATTTTTTATC-TGA-AAAAAAGGGGTGTCGGCCATGCAATGGCCAACACCAA
17080624 TTTTTTTTTC
Statistics
Matches: 196, Mismatches: 21, Indels: 29
0.80 0.09 0.12
Matches are distributed among these distances:
57 1 0.01
58 26 0.13
59 25 0.13
60 71 0.36
61 33 0.17
62 36 0.18
63 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (60 bp):
ATTTTTTATCTGAAAAAAAGGGGTGTCGGCCATGCAATGGCCAACACCAAAAAAATTTGA
Found at i:17080592 original size:122 final size:121
Alignment explanation
Indices: 17080306--17080623 Score: 352
Period size: 122 Copynumber: 2.7 Consensus size: 121
17080296 TTGGTGTCAG
* *
17080306 CCATTGCATGACC-A-AC-AAAAAAAA-TG-ATTTTTTACCAGATAAAAAAGAGGGTGTCGGCCA
1 CCATTGCATGACCAACACAAAAAAAAATTGAATTTTTTATCATATAAAAAAG-GGGTGTCGGCCA
* * *
17080366 TGCAATGGCCAACACC--AAAAATTTGGATTTTTATCTGACAAAAAGGAGGCGTCGG
65 TGCAATGGCCAACACCAAAAAAATTTGAATTTTTATCTGAAAAAAAGGAGGCGTCGA
* *
17080421 CCATTGCATGACCAACACAAAAAAAAATTGAATTTTTTATC-TGA-CAAAAAGGGGTGTCGGTCA
1 CCATTGCATGACCAACACAAAAAAAAATTGAATTTTTTATCAT-ATAAAAAAGGGGTGTCGGCCA
*
17080484 TGCAATGGCCAACACCAAAAAAATTTGAAATTTGTTTATCTGAAAAAAAGG-GGTGTCGA
65 TGCAATGGCCAACACCAAAAAAATTTG-AA-TT-TTTATCTGAAAAAAAGGAGGCGTCGA
* ** ** * * * *
17080543 TCATTGCATGGTCAACAC-TCAAAAATTTGATTTTTTTATCATATTAAAAAGGGGTGTCGACCAT
1 CCATTGCATGACCAACACAAAAAAAAATTGAATTTTTTATCATATAAAAAAGGGGTGTCGGCCAT
*
17080607 CCAATGGCCAACACCAA
66 GCAATGGCCAACACCAA
17080624 TTTTTTTTTC
Statistics
Matches: 171, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
115 13 0.08
116 1 0.01
117 2 0.01
118 35 0.20
119 8 0.05
120 19 0.11
121 20 0.12
122 57 0.33
123 16 0.09
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (121 bp):
CCATTGCATGACCAACACAAAAAAAAATTGAATTTTTTATCATATAAAAAAGGGGTGTCGGCCAT
GCAATGGCCAACACCAAAAAAATTTGAATTTTTATCTGAAAAAAAGGAGGCGTCGA
Found at i:17084026 original size:18 final size:17
Alignment explanation
Indices: 17084003--17084036 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17083993 AGAAGTTGTT
17084003 ATAATTATAAATTTAAAA
1 ATAATTA-AAATTTAAAA
*
17084021 ATAATTAGAATTTAAA
1 ATAATTAAAATTTAAA
17084037 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAATTAAAATTTAAAA
Found at i:17084511 original size:43 final size:44
Alignment explanation
Indices: 17084429--17084515 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
17084419 AATTAAGTAA
* * *
17084429 AATAGAAGTTGTGATAATTATACATTTAAAACTATTTATAATTT
1 AATAGAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
*
17084473 AATAGAAGTTGTGA-AATTGCACATTTAAAAATAATTATAATTT
1 AATAGAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
17084516 GAAATTTACC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 25 0.64
44 14 0.36
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (44 bp):
AATAGAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
Found at i:17084735 original size:23 final size:23
Alignment explanation
Indices: 17084704--17084767 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
17084694 AGTTTTTATA
*
17084704 TGCCTTTGTGGCACGCTTTTCCTT
1 TGCC-TTGTGGCACGCTTTTCCTC
* * *
17084728 TGCCTTGTGACACGATTTTTCTC
1 TGCCTTGTGGCACGCTTTTCCTC
17084751 TGCCTTGTGGCACGCTT
1 TGCCTTGTGGCACGCTT
17084768 CTGCCTTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 30 0.88
24 4 0.12
ACGTcount: A:0.08, C:0.28, G:0.22, T:0.42
Consensus pattern (23 bp):
TGCCTTGTGGCACGCTTTTCCTC
Found at i:17089931 original size:21 final size:21
Alignment explanation
Indices: 17089905--17089964 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
17089895 AATAGTGCAG
17089905 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
*
17089926 AGTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
* *
17089947 TCTTCTACCGAAACAAGT
1 ACTTCTACCGATACAAGT
17089965 CTTACTTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:17089972 original size:21 final size:20
Alignment explanation
Indices: 17089905--17089981 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 20
17089895 AATAGTGCAG
17089905 ACTTCTACCGATACAAGTGAC-
1 ACTTCTACCGATACAAGT--CT
*
17089926 AGTTCTACCGATACAAGTGACT
1 ACTTCTACCGATACAAGT--CT
*
17089948 -CTTCTACCGAAACAAGTCTT
1 ACTTCTACCGATACAAGTC-T
*
17089968 ACTTCTACTGATAC
1 ACTTCTACCGATAC
17089982 TAAAAACTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 46 0.96
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (20 bp):
ACTTCTACCGATACAAGTCT
Found at i:17095865 original size:53 final size:53
Alignment explanation
Indices: 17095815--17095952 Score: 213
Period size: 53 Copynumber: 2.6 Consensus size: 53
17095805 AGGCACACAG
* * *
17095815 GCTGGCAAACAGGCGTGTGTCAAGGTGTGTGTATACTATTTGGAGACACACGA
1 GCTGGCACACGGGCGTGTGTCAGGGTGTGTGTATACTATTTGGAGACACACGA
* * *
17095868 GCTGGCACACGGGCATGTGTCAGGGTGTGTGTATACTGTTTGGAGGCACACGA
1 GCTGGCACACGGGCGTGTGTCAGGGTGTGTGTATACTATTTGGAGACACACGA
*
17095921 GCTGGCACACGGGTGTGTGTCAGGGTGTGTGT
1 GCTGGCACACGGGCGTGTGTCAGGGTGTGTGT
17095953 GTCTATTGTT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 77 1.00
ACGTcount: A:0.20, C:0.17, G:0.38, T:0.25
Consensus pattern (53 bp):
GCTGGCACACGGGCGTGTGTCAGGGTGTGTGTATACTATTTGGAGACACACGA
Found at i:17096025 original size:43 final size:43
Alignment explanation
Indices: 17095935--17096079 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
17095925 GCACACGGGT
* * *
17095935 GTGTGTCAGGGTGTGTGTGTCTATTGTTTTAAGGCAGACAGG-T
1 GTGTGTCAGGGTGTGTGTGTATATTGTTTTGAGGCAGAC-GGAC
* *
17095978 GTGTGTTAGGGTGTGTGTGTATACTGTTTTGAGGCAGACGGAC
1 GTGTGTCAGGGTGTGTGTGTATATTGTTTTGAGGCAGACGGAC
** * *
17096021 GTGTGTCA--AAGTGTATGTATATTGTTTTGAGGCACAC-GAGC
1 GTGTGTCAGGGTGTGTGTGTATATTGTTTTGAGGCAGACGGA-C
*
17096062 GTGTGTCAAGGTGTGTGT
1 GTGTGTCAGGGTGTGTGT
17096080 ATATTATTCT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.02
41 33 0.39
42 2 0.02
43 47 0.56
ACGTcount: A:0.18, C:0.10, G:0.37, T:0.36
Consensus pattern (43 bp):
GTGTGTCAGGGTGTGTGTGTATATTGTTTTGAGGCAGACGGAC
Found at i:17096081 original size:41 final size:41
Alignment explanation
Indices: 17095990--17096100 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
17095980 GTGTTAGGGT
* *
17095990 GTGTGTGTATACTGTTTTGAGGCAGACGGACGTGTGTCAAA
1 GTGTGTGTATATTGTTTTGAGGCACACGGACGTGTGTCAAA
* *
17096031 GTGTATGTATATTGTTTTGAGGCACAC-GAGCGTGTGTCAAG
1 GTGTGTGTATATTGTTTTGAGGCACACGGA-CGTGTGTCAAA
* * *
17096072 GTGTGTGTATATTATTCTGGGGCACACGG
1 GTGTGTGTATATTGTTTTGAGGCACACGG
17096101 GTTGACACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.03
41 57 0.95
42 1 0.02
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (41 bp):
GTGTGTGTATATTGTTTTGAGGCACACGGACGTGTGTCAAA
Found at i:17096117 original size:53 final size:53
Alignment explanation
Indices: 17096060--17096188 Score: 172
Period size: 53 Copynumber: 2.4 Consensus size: 53
17096050 AGGCACACGA
* **
17096060 GCGTGTGTCAAGGTGTGTGTATATTATTCTGGGGCACACGGGT-TGACACATGG
1 GCGTGTGTCAAGGTGTGTGTATATTACTCTAAGGCAC-CGGGTCTGACACATGG
* *
17096113 GCGTGTGTC-AGGATGTGTGTATATTGCTCTAAGGCACCTGGTCTGACACATGG
1 GCGTGTGTCAAGG-TGTGTGTATATTACTCTAAGGCACCGGGTCTGACACATGG
*
17096166 GTGTGTGTCAAGGTGTGTGTATA
1 GCGTGTGTCAAGGTGTGTGTATA
17096189 CTGTTTTGAG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
52 7 0.10
53 57 0.85
54 3 0.04
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.32
Consensus pattern (53 bp):
GCGTGTGTCAAGGTGTGTGTATATTACTCTAAGGCACCGGGTCTGACACATGG
Done.