Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 174 of 345
Found at i:59406716 original size:27 final size:27
Alignment explanation
Indices: 59406686--59406867 Score: 229
Period size: 27 Copynumber: 6.7 Consensus size: 27
59406676 GCGTACCTGA
*
59406686 ACCCTTATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
59406713 ACCCTTATGTGATAAAATAACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
59406740 GCCCTCACGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
59406767 ACCCATATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
59406794 TCCCTTATGTTATAAGATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
59406821 TCCCTTATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
59406848 TCCCTTATATGATAAAATGA
1 ACCCTTATGTGATAAAATGA
59406868 TCGAAATACC
Statistics
Matches: 133, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:59406758 original size:54 final size:54
Alignment explanation
Indices: 59406687--59406867 Score: 254
Period size: 54 Copynumber: 3.4 Consensus size: 54
59406677 CGTACCTGAA
* * *
59406687 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATAACAATTTTG
1 CCCTTATGTGATAAAATGACGATTTTACCCTTATGTGATAAAATGACAATTTTT
* * * **
59406741 CCCTCACGTGATAAAATGACGATTTTACCCATATGTGATAAAATGATGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTACCCTTATGTGATAAAATGACAATTTTT
* * *
59406795 CCCTTATGTTATAAGATGACGATTTTTCCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGATAAAATGACGATTTTACCCTTATGTGATAAAATGACAATTTTT
*
59406849 CCCTTATATGATAAAATGA
1 CCCTTATGTGATAAAATGA
59406868 TCGAAATACC
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (54 bp):
CCCTTATGTGATAAAATGACGATTTTACCCTTATGTGATAAAATGACAATTTTT
Found at i:59406833 original size:81 final size:81
Alignment explanation
Indices: 59406686--59406868 Score: 258
Period size: 81 Copynumber: 2.3 Consensus size: 81
59406676 GCGTACCTGA
59406686 ACCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATAACAATTTTGCCCTCACGTG
1 ACCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATAACAATTTTGCCCTCACGTG
*
59406751 ATAAAATGACGATTTT
66 ATAAAATGACAATTTT
* * * * * * * * *
59406767 ACCCATATGTGATAAAATGATGATTTTTCCCTTATGTTATAAGATGACGATTTTTCCCTTATGTG
1 ACCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATAACAATTTTGCCCTCACGTG
59406832 ATAAAATGACAATTTT
66 ATAAAATGACAATTTT
* *
59406848 TCCCTTATATGATAAAATGAT
1 ACCCTTATGTGATAAAATGAT
59406869 CGAAATACCC
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 89 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (81 bp):
ACCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATAACAATTTTGCCCTCACGTG
ATAAAATGACAATTTT
Found at i:59406999 original size:23 final size:23
Alignment explanation
Indices: 59406956--59407005 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
59406946 CTGTATTTGA
59406956 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
59406979 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
59407002 GCAT
1 GCAT
59407006 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:59411857 original size:12 final size:12
Alignment explanation
Indices: 59411839--59411872 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59411829 TCCCTCATTT
59411839 CTTTTCACTCAC
1 CTTTTCACTCAC
* *
59411851 TTTTTCACACAC
1 CTTTTCACTCAC
59411863 CTTTTCACTC
1 CTTTTCACTC
59411873 TTTTCTTGCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (12 bp):
CTTTTCACTCAC
Found at i:59415632 original size:20 final size:20
Alignment explanation
Indices: 59415578--59415634 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
59415568 GAGATGGAAT
* *
59415578 TGAGCTGGATGTGAACTTGT
1 TGAGCTGGATGTGAGCTTGC
**
59415598 TGAGCTGGAACTGAGCTTGC
1 TGAGCTGGATGTGAGCTTGC
*
59415618 TGAGCTGGTTGTGAGCT
1 TGAGCTGGATGTGAGCT
59415635 GGACGAGCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.14, G:0.37, T:0.32
Consensus pattern (20 bp):
TGAGCTGGATGTGAGCTTGC
Found at i:59417509 original size:18 final size:18
Alignment explanation
Indices: 59417483--59417517 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59417473 GACTTATGCA
*
59417483 CATATAAATATATATACT
1 CATAGAAATATATATACT
59417501 CATAGAAATATATATAC
1 CATAGAAATATATATAC
59417518 ATATGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (18 bp):
CATAGAAATATATATACT
Found at i:59417520 original size:16 final size:16
Alignment explanation
Indices: 59417482--59417520 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
59417472 TGACTTATGC
*
59417482 ACATATAAATATATAT
1 ACATAGAAATATATAT
59417498 ACTCATAGAAATATATAT
1 A--CATAGAAATATATAT
59417516 ACATA
1 ACATA
59417521 TGATAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
18 15 0.75
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (16 bp):
ACATAGAAATATATAT
Found at i:59421986 original size:18 final size:19
Alignment explanation
Indices: 59421965--59422014 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
59421955 CTGCAAGGAC
* *
59421965 AAGGACAAAGG-GAAGGCT
1 AAGGACAAAGGCAAAGACT
*
59421983 AAGG-CTAAGGCAAAGACT
1 AAGGACAAAGGCAAAGACT
*
59422001 AAGGACAATGGCAA
1 AAGGACAAAGGCAA
59422015 GACCAAGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 5 0.20
18 13 0.52
19 7 0.28
ACGTcount: A:0.46, C:0.14, G:0.32, T:0.08
Consensus pattern (19 bp):
AAGGACAAAGGCAAAGACT
Found at i:59424093 original size:27 final size:27
Alignment explanation
Indices: 59424062--59424125 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
59424052 TGGATAAGTT
* * * *
59424062 GTAGAATTATCGAAATACCTCTGTAGG
1 GTAGAATTACCAAAATACCCCTATAGG
*
59424089 TTAGAATTACCAAAATACCCCTATAGG
1 GTAGAATTACCAAAATACCCCTATAGG
59424116 GTAGAATTAC
1 GTAGAATTAC
59424126 TGAGATACCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTATAGG
Found at i:59424133 original size:27 final size:27
Alignment explanation
Indices: 59424062--59424135 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
59424052 TGGATAAGTT
* *
59424062 GTAGAATTA-TCGAAATACCTCTGTAGG
1 GTAGAATTACT-GAAATACCCCTATAGG
* **
59424089 TTAGAATTACCAAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTATAGG
*
59424116 GTAGAATTACTGAGATACCC
1 GTAGAATTACTGAAATACCC
59424136 TTGTATGGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTATAGG
Found at i:59424923 original size:26 final size:27
Alignment explanation
Indices: 59424894--59424953 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
59424884 CCACATATAT
*
59424894 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
59424920 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
59424947 ATATCTG
1 ATATCTG
59424954 GTAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:59425348 original size:17 final size:17
Alignment explanation
Indices: 59425328--59425382 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
59425318 TAAGTTAGTT
59425328 TATTTTTATTCTTTTTA
1 TATTTTTATTCTTTTTA
* * * *
59425345 TATTCTGATTGTTAGTT-
1 TATTTTTATTCTT-TTTA
59425362 TATTTTTATTCTTTTTA
1 TATTTTTATTCTTTTTA
59425379 TATT
1 TATT
59425383 CTGATTTAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
16 2 0.07
17 24 0.86
18 2 0.07
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (17 bp):
TATTTTTATTCTTTTTA
Found at i:59425364 original size:34 final size:34
Alignment explanation
Indices: 59425321--59425388 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
59425311 GTTTTTCTAA
59425321 GTTAGTTTATTTTTATTCTTTTTATATTCTGATT
1 GTTAGTTTATTTTTATTCTTTTTATATTCTGATT
59425355 GTTAGTTTATTTTTATTCTTTTTATATTCTGATT
1 GTTAGTTTATTTTTATTCTTTTTATATTCTGATT
59425389 TAATTTTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.68
Consensus pattern (34 bp):
GTTAGTTTATTTTTATTCTTTTTATATTCTGATT
Found at i:59425851 original size:30 final size:29
Alignment explanation
Indices: 59425808--59425871 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
59425798 CAAGTAACCG
59425808 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
59425837 AAGCTAGTTTAAATCGTACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
59425867 AAGCT
1 AAGCT
59425872 TCCTATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:59430103 original size:44 final size:44
Alignment explanation
Indices: 59429999--59430086 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
59429989 ATCACAGTAG
*
59429999 ATAACCCATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
1 ATAACCAATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
59430043 ATAACCAATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
1 ATAACCAATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
59430087 TCTTACATCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (44 bp):
ATAACCAATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
Found at i:59433183 original size:29 final size:29
Alignment explanation
Indices: 59433139--59433201 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
59433129 CAAGTAATCG
59433139 AAGCTAGTTAAATCGCACACTTAGTG-CA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
59433167 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
59433197 AAGCT
1 AAGCT
59433202 TCCGATTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 7 0.21
29 19 0.58
30 7 0.21
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:59439290 original size:129 final size:129
Alignment explanation
Indices: 59439060--59439317 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
59439050 ATTCGTCTCC
*
59439060 CTCTCGCATACGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
1 CTCTCGCATAAGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
*
59439125 TAAGTTCGTCAAGCATGTCGTCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
66 TAAGTTCGTCAAGCATGTCATCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
59439189 CTCTCGCATAAGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
1 CTCTCGCATAAGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
59439254 TAAGTTCGTCAAGCATGTCATCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
66 TAAGTTCGTCAAGCATGTCATCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
59439318 GATGGCGTGT
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (129 bp):
CTCTCGCATAAGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
TAAGTTCGTCAAGCATGTCATCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
Found at i:59439451 original size:182 final size:182
Alignment explanation
Indices: 59439144--59439506 Score: 663
Period size: 182 Copynumber: 2.0 Consensus size: 182
59439134 CAAGCATGTC
* **
59439144 GTCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTCTCTCGCATAAGAATTTGGT
1 GTCAAGGCAGGGAATGTGATGTCTATATTTGACAATGGTCTTGCCCTCTCGCATAAGAATTTGGT
*
59439209 GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTAAGTTCGTCAAGCATGTCA
66 GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTAAGTTCATCAAGCATGTCA
59439274 TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCGT
131 TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCGT
*
59439326 GTCAAGGCAGGGAATGTGATGTCTATATTTGACAATGGTCTTGCCCTCTCGCATACGAATTTGGT
1 GTCAAGGCAGGGAATGTGATGTCTATATTTGACAATGGTCTTGCCCTCTCGCATAAGAATTTGGT
* *
59439391 GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTATGTTCATCAAGCATGTCG
66 GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTAAGTTCATCAAGCATGTCA
59439456 TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCG
131 TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCG
59439507 CGACAGTCAA
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 174 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (182 bp):
GTCAAGGCAGGGAATGTGATGTCTATATTTGACAATGGTCTTGCCCTCTCGCATAAGAATTTGGT
GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTAAGTTCATCAAGCATGTCA
TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCGT
Found at i:59442709 original size:30 final size:30
Alignment explanation
Indices: 59442675--59442771 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
59442665 TAAACTAAAA
59442675 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * ** * * *
59442705 TGAGCTGAGGC-TAAATTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
59442735 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
59442765 TGAGCTA
1 TGAGCTA
59442772 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.83
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:59444947 original size:30 final size:30
Alignment explanation
Indices: 59444876--59444958 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
59444866 CTTTTGTTTC
* *
59444876 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
59444907 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
59444936 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
59444959 ACTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:59445037 original size:5 final size:5
Alignment explanation
Indices: 59445027--59445083 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
59445017 CTCTTGCCTC
*
59445027 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
59445074 TCTTT TCTTT
1 TCTTT TCTTT
59445084 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:59445067 original size:15 final size:14
Alignment explanation
Indices: 59445027--59445083 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
59445017 CTCTTGCCTC
*
59445027 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
59445042 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
59445057 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
59445074 TCTTTTCTTT
1 TCTTTTCTTT
59445084 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:59445084 original size:21 final size:21
Alignment explanation
Indices: 59445027--59445094 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
59445017 CTCTTGCCTC
* *
59445027 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
59445048 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
59445069 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
59445089 CTCTTT
1 -TCTTT
59445095 ACAAAAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:59447698 original size:30 final size:30
Alignment explanation
Indices: 59447664--59447760 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
59447654 TATACTAAAA
59447664 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
59447694 TGAGCTGAGGC-TAAACTTC-TAAGCTGAAGT
1 TGAGCT-AAGCTTTAGC-TCGTGAGCTAAAGT
* * *
59447724 TTAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
59447754 TGAGCTA
1 TGAGCTA
59447761 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
29 4 0.08
30 36 0.75
31 8 0.17
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:59448893 original size:13 final size:12
Alignment explanation
Indices: 59448875--59448917 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
59448865 ATATATTCTT
59448875 TTTTTTGTACGAA
1 TTTTTT-TACGAA
59448888 TTTTTTTA--AA
1 TTTTTTTACGAA
59448898 TTTTTTTTACGAA
1 -TTTTTTTACGAA
59448911 TTTTTTT
1 TTTTTTT
59448918 CACTGAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.07
11 8 0.30
12 9 0.33
13 8 0.30
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (12 bp):
TTTTTTTACGAA
Found at i:59453060 original size:50 final size:50
Alignment explanation
Indices: 59452996--59453119 Score: 137
Period size: 48 Copynumber: 2.5 Consensus size: 50
59452986 GGTGTCAATC
*
59452996 TAAGACCTTGTCTGGGACATGGCATCAGCACGGATATGT-GAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCAG-ACGGATATGTCGAGAGCTAGTG
* * * ** * * *
59453046 TAAGACCATGTCTGGGACATGG-GT-TGGCGTCTATTTCGATAGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCAGACGGATATGTCGAGAGCTAGTG
59453094 TAAGACCATGTCTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
59453120 GGCATTATAC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
47 6 0.10
48 32 0.52
49 2 0.03
50 21 0.34
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCAGACGGATATGTCGAGAGCTAGTG
Found at i:59453292 original size:88 final size:88
Alignment explanation
Indices: 59453181--59453354 Score: 321
Period size: 88 Copynumber: 2.0 Consensus size: 88
59453171 TGGTTCAATG
* * *
59453181 GTGAGAGTTATAGTTTAAGTTAAATGATAAAAGTATAACCATGTTGTGAGTGGTATAGGTACCTA
1 GTGAGAGTTACAGTTTAAGTTAAACGATAAAAGTATAACCATGTTATGAGTGGTATAGGTACCTA
59453246 TTTGAAATGTATGAGATATGACA
66 TTTGAAATGTATGAGATATGACA
59453269 GTGAGAGTTACAGTTTAAGTTAAACGATAAAAGTATAACCATGTTATGAGTGGTATAGGTACCTA
1 GTGAGAGTTACAGTTTAAGTTAAACGATAAAAGTATAACCATGTTATGAGTGGTATAGGTACCTA
59453334 TTTGAAATGTATGAGATATGA
66 TTTGAAATGTATGAGATATGA
59453355 GCTCAATATA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (88 bp):
GTGAGAGTTACAGTTTAAGTTAAACGATAAAAGTATAACCATGTTATGAGTGGTATAGGTACCTA
TTTGAAATGTATGAGATATGACA
Found at i:59454272 original size:20 final size:21
Alignment explanation
Indices: 59454232--59454272 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59454222 TAGAATTTAA
59454232 TTCACACGGGCATGTTGCCCT
1 TTCACACGGGCATGTTGCCCT
*
59454253 TTCACACGGGCGTG-TGCCCT
1 TTCACACGGGCATGTTGCCCT
59454273 ATTTCAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.12, C:0.34, G:0.27, T:0.27
Consensus pattern (21 bp):
TTCACACGGGCATGTTGCCCT
Found at i:59459076 original size:7 final size:7
Alignment explanation
Indices: 59459064--59459089 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59459054 TGATGAGATT
59459064 TTTTGTA
1 TTTTGTA
59459071 TTTTGTA
1 TTTTGTA
59459078 TTTTGTA
1 TTTTGTA
59459085 TTTTG
1 TTTTG
59459090 AAATACGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (7 bp):
TTTTGTA
Found at i:59459605 original size:44 final size:44
Alignment explanation
Indices: 59459555--59459700 Score: 146
Period size: 44 Copynumber: 3.4 Consensus size: 44
59459545 TATGTGTTAT
59459555 CGTGTAAGACCACGTCTCA-GACGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCACGTCTCAGGACGTTGGCATCGATTT-TGATTTA
* * *
59459599 CGTGTAAGACCATGTCT-AGGACATTGGCATCG-TATATGATTT-
1 CGTGTAAGACCACGTCTCAGGACGTTGGCATCGAT-TTTGATTTA
*
59459641 CGTGTAAGACC-C-TGTCAGGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCACGTCTCA-GGAC-GTTGGCATCGAT-TTTGATTTA
*
59459684 CATGTAAGACCACGTCT
1 CGTGTAAGACCACGTCT
59459701 GGGATGTTGG
Statistics
Matches: 84, Mismatches: 9, Indels: 17
0.76 0.08 0.15
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 25 0.30
43 24 0.29
44 30 0.36
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTCAGGACGTTGGCATCGATTTTGATTTA
Found at i:59459712 original size:43 final size:43
Alignment explanation
Indices: 59459541--59459712 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
59459531 ACATAGGATT
* **
59459541 TCGATATGTG-TTATCGTGTAAGACCACGTCTCAGACGTTGGCA
1 TCGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCA
* * *
59459584 TCGAT-TTGTGATTTACGTGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * *
59459628 TCG-TATATGATTTCGTGTAAGACC-CTGTCAGGGACAG-TGGCA
1 TCGATATTTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* *
59459670 TCGATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
59459713 CTATACGAGC
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 30 0.29
43 41 0.39
44 30 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:59467505 original size:28 final size:28
Alignment explanation
Indices: 59467465--59467535 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
59467455 TCGCTGTCTT
*
59467465 GCACACTAAGTGCC-TTACTAAATATCTC
1 GCACACCAAGTGCCATT-CTAAATATCTC
* *
59467493 GCACACCAAGTGCCATTCTCAATATTTC
1 GCACACCAAGTGCCATTCTAAATATCTC
* *
59467521 GCACACTAAATGCCA
1 GCACACCAAGTGCCA
59467536 CAAATATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.32, C:0.31, G:0.11, T:0.25
Consensus pattern (28 bp):
GCACACCAAGTGCCATTCTAAATATCTC
Found at i:59468755 original size:28 final size:28
Alignment explanation
Indices: 59468686--59468758 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
59468676 TATATGTGGG
* *
59468686 ACTTAGTGTGCGAAATATTGAGAATGAC
1 ACTTAGTGTGCGAGATATTAAGAATGAC
* *
59468714 ACTTGGTGTGCGAGATATTAAGTAA-GGC
1 ACTTAGTGTGCGAGATATTAAG-AATGAC
*
59468742 ACTTAGTGTACGAGATA
1 ACTTAGTGTGCGAGATA
59468759 GCGAAGATGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (28 bp):
ACTTAGTGTGCGAGATATTAAGAATGAC
Found at i:59468862 original size:13 final size:13
Alignment explanation
Indices: 59468844--59468869 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59468834 AAATGATTCG
59468844 GTTTATGATTTCA
1 GTTTATGATTTCA
59468857 GTTTATGATTTCA
1 GTTTATGATTTCA
59468870 TCATAAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
GTTTATGATTTCA
Found at i:59470810 original size:46 final size:46
Alignment explanation
Indices: 59470743--59470920 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
59470733 TGTAACCTGC
*
59470743 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGTTCGCAT
* * * * *
59470789 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATG-TTCGCAT
* *** * * **
59470835 ACATCTCTCGAACTCAGACTCAACTCAATGAG-TTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTT-GGATGTTCGCAT
59470882 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGATG
59470921 CCCAAACATC
Statistics
Matches: 101, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
46 71 0.70
47 30 0.30
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGTTCGCAT
Found at i:59470856 original size:93 final size:93
Alignment explanation
Indices: 59470751--59470922 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
59470741 GCCCATAAGT
* ***
59470751 GAACTCGGACTCAACTCAACGAGCTT-GGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59470815 ACAAGCTCGGATGCCTAGTTACATCTCTC
65 ACAAGCTCGGATGCCTAGTTACATCTCTC
*
59470844 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
59470909 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
59470923 CAAACATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:59473006 original size:6 final size:6
Alignment explanation
Indices: 59472988--59473078 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
59472978 AAGAAACATT
* * *
59472988 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
59473037 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
59473079 GTAACAAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 54 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:59473090 original size:31 final size:31
Alignment explanation
Indices: 59472999--59473093 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
59472989 TCAGAACTAG
* * * * *
59472999 AATCAGAATCAGAATTAGGTGACAGAATTAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
59473030 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
*
59473061 AATCAGAATCAGTATCAGGTAACAAAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
59473092 AA
1 AA
59473094 ATAAGAATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:59473911 original size:27 final size:27
Alignment explanation
Indices: 59473881--59474149 Score: 376
Period size: 27 Copynumber: 10.0 Consensus size: 27
59473871 ATTACCATTT
* * *
59473881 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
59473908 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
59473935 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
59473962 TACCCTATAGGGGTATTCCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
59473989 TACCCTACAGGGGTATTTCGATAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * * **
59474016 TACCCTATAAGGGTATTGCAATAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* **
59474043 TACCTTACAGGGGTATTTCAATAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
59474070 TACCCTACAGGGGTATTCCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
59474097 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
59474124 TACCCTATAAGGGTATTTCGGTAATT
1 TACCCTACAGGGGTATTTCGGTAATT
59474150 TCACAAATCA
Statistics
Matches: 217, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 217 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:59474205 original size:27 final size:27
Alignment explanation
Indices: 59474132--59474748 Score: 259
Period size: 27 Copynumber: 22.9 Consensus size: 27
59474122 TCTACCCTAT
***
59474132 AAGGGTATTTCGGTAATTTCACAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
* * *
59474159 AGGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTCGGTAATTTTGTAAATC
*
59474186 AAGGGTATTTCAGTAATTTTGTAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
* ** * *
59474213 GAGGGTAAAAT-GGTAATTCTGTAAATT
1 AAGGGT-ATTTCGGTAATTTTGTAAATC
* *** * * *
59474240 GAGGGTAAAACGATAATTCTATAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
* *** * *
59474267 GAGGGTAAAACGATAATTCTGTAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
* ** * * *
59474294 GAGGGTAAAAT-AGTAATTCTATCT-TA-C
1 AAGGGT-ATTTCGGTAATT-T-TGTAAATC
* * * *
59474321 AAGAGTATTTCAGTAATTTTATAAATT
1 AAGGGTATTTCGGTAATTTTGTAAATC
* * *
59474348 AAGGGTATTTCAGTAATTTTGCAAACTG
1 AAGGGTATTTCGGTAATTTTGTAAA-TC
**
59474376 AA-GGTATTTCGGTAATTTTACAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
* * *
59474402 AAGGATATTTGGGTAATTTTATAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
** ** *
59474429 GGGGGTACTTT-GGTAATTTTACAAGTC
1 AAGGGTA-TTTCGGTAATTTTGTAAATC
* * **
59474456 GAGGGTATTTCAGTAATTTTACAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
* *
59474483 GAGGGTATTTCGGTAATTTTGCAAA-C
1 AAGGGTATTTCGGTAATTTTGTAAATC
* **
59474509 TGAGGGTATTTCGGTAATTTTACAAATC
1 -AAGGGTATTTCGGTAATTTTGTAAATC
* * * *
59474537 GAGGATATTTGGGTAATTTTATAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
** ** *
59474564 GGGGGTACTTT-GGTAATTTTACAAGTC
1 AAGGGTA-TTTCGGTAATTTTGTAAATC
* * ** *
59474591 GAGGGTATTTCAGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTGTAAATC
* * * * *
59474618 GAGGTTATTTCAGTAATTTTG-CAAGC
1 AAGGGTATTTCGGTAATTTTGTAAATC
* **
59474644 TGAGGGTATTT-GGTAATTTTACAAATC
1 -AAGGGTATTTCGGTAATTTTGTAAATC
* * * *
59474671 GAGGATATTTGGGTAATTTTATAAATC
1 AAGGGTATTTCGGTAATTTTGTAAATC
** *
59474698 AAGGGTACTTT-GGTAATTTTACAACT-
1 AAGGGTA-TTTCGGTAATTTTGTAAATC
* * *
59474724 AGGGGTATTTCAGTAATTTGGTAAA
1 AAGGGTATTTCGGTAATTTTGTAAA
59474749 CTAAAGTATT
Statistics
Matches: 481, Mismatches: 88, Indels: 43
0.79 0.14 0.07
Matches are distributed among these distances:
25 5 0.01
26 51 0.11
27 404 0.84
28 19 0.04
29 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTGTAAATC
Found at i:59474212 original size:54 final size:54
Alignment explanation
Indices: 59474133--59474742 Score: 400
Period size: 54 Copynumber: 11.3 Consensus size: 54
59474123 CTACCCTATA
* * * * * * *
59474133 AGGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTATAAATCGA-GGGTATTTCGGTAATTTTATAAATCG
* ** * * *
59474187 AGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAAT-GGTAATTCTGTAAATTG
1 AGGGTATTTCAGTAATTTTATAAATCGAGGGT-ATTTCGGTAATTTTATAAATCG
*** * *** * * *
59474241 AGGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTATTTCAG-TAATTTTATAAATCGAGGGTATTTCGGTAATTTTATAAATCG
** * ** * * * **
59474295 AGGGTAAAAT-AGTAATTCTAT-CTTACAAGAGTATTTCAGTAATTTTATAAATTA
1 AGGGT-ATTTCAGTAATTTTATAAAT-CGAGGGTATTTCGGTAATTTTATAAATCG
** * * *
59474349 AGGGTATTTCAGTAATTTTGCAAA-CTGAAGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTATAAATC-GAGGGTATTTCGGTAATTTTATAAATCG
* ** * * *
59474403 AGGATATTTGGGTAATTTTATAAATCGGGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTATTTCAGTAATTTTATAAATCGAGGGTA-TTTCGGTAATTTTATAAATCG
* **
59474457 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTCGGTAATTTTATAAATC-G
* * * *
59474511 AGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTCGGTAATTTTATAAATCG
* * * * * * *
59474565 GGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTA-TTTCAGTAATTTTATAAATCGAGGGTATTTCGGTAATTTTATAAATCG
* ** * *
59474619 AGGTTATTTCAGTAATTTT-GCAAGCTGAGGGTATTT-GGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTATAAATC-GAGGGTATTTCGGTAATTTTATAAATCG
* ** * * * *
59474672 AGGATATTTGGGTAATTTTATAAATCAAGGGTACTTT-GGTAATTTTACAACTAG
1 AGGGTATTTCAGTAATTTTATAAATCGAGGGTA-TTTCGGTAATTTTATAAATCG
59474726 -GGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
59474743 GGTAAACTAA
Statistics
Matches: 442, Mismatches: 94, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
53 68 0.15
54 359 0.81
55 15 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTCGGTAATTTTATAAATCG
Found at i:59474392 original size:135 final size:134
Alignment explanation
Indices: 59474325--59474742 Score: 696
Period size: 135 Copynumber: 3.1 Consensus size: 134
59474315 TCTTACAAGA
* * *
59474325 GTATTTCAGTAATTTTATAAATTAAGGGTATTTCAGTAATTTTGCAAACTGAAGGTATTTCGGTA
1 GTATTTCAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTCGGTA
*
59474390 ATTTTACAAATCAAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGT
66 ATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAG-
59474455 CGAGG
130 CGAGG
* *
59474460 GTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGCAAACTGAGGGTATTTCGGTA
1 GTATTTCAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTCGGTA
59474525 ATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGT
66 ATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAG-
59474590 CGAGG
130 CGAGG
* *
59474595 GTATTTCAGTAATTTTACAAATTGAGGTTATTTCAGTAATTTTGCAAGCTGAGGGTATTT-GGTA
1 GTATTTCAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTCGGTA
**
59474659 ATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCAAGGGTACTTTGGTAATTTTACAA-C
66 ATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGC
*
59474723 TAGGG
131 GA-GG
59474728 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
59474743 GGTAAACTAA
Statistics
Matches: 269, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
132 2 0.01
133 17 0.06
134 65 0.24
135 185 0.69
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (134 bp):
GTATTTCAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTCGGTA
ATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGC
GAGG
Found at i:59482652 original size:66 final size:68
Alignment explanation
Indices: 59482523--59482652 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 68
59482513 GGGATGTATC
* * * *
59482523 CCATTTAGACAAGAGAGCTACATGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC---AGAGATAAATGCAGCCAGGTCGCATGAGTGATACCAAGTGA
59482588 AGGACA
63 AGGACA
* *
59482594 CCATGTAGACAAGAGAGCTAC-GAGATAAAT-CAGCCAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACAGAGATAAATGCAGCCAGGTCGCATGAGTGATACCAAGTG
59482653 TTCACCATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
66 24 0.45
67 9 0.17
71 20 0.38
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACAGAGATAAATGCAGCCAGGTCGCATGAGTGATACCAAGTGAAGG
ACA
Found at i:59489774 original size:28 final size:28
Alignment explanation
Indices: 59489742--59489811 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
59489732 AATGAGATTG
*
59489742 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
* *
59489770 GCACTAAGTGTGCAAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
59489798 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59489812 GACTTACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:59503026 original size:12 final size:12
Alignment explanation
Indices: 59503009--59503039 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59502999 TCAGTTCACT
59503009 CTTTCAACTGAG
1 CTTTCAACTGAG
*
59503021 CTTTCAACTTAG
1 CTTTCAACTGAG
59503033 CTTTCAA
1 CTTTCAA
59503040 AATTTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.39
Consensus pattern (12 bp):
CTTTCAACTGAG
Found at i:59505680 original size:20 final size:21
Alignment explanation
Indices: 59505657--59505700 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
59505647 TAGGGGTTGA
* * *
59505657 ATGAATTGTTTAT-AAATGGC
1 ATGAAATGTGTATGAAATAGC
59505677 ATGAAATGTGTATGAAATAGC
1 ATGAAATGTGTATGAAATAGC
59505698 ATG
1 ATG
59505701 CTTTGGTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (21 bp):
ATGAAATGTGTATGAAATAGC
Found at i:59513288 original size:39 final size:39
Alignment explanation
Indices: 59513118--59513341 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 39
59513108 TTGAATGCTG
* * *
59513118 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAA
* *
59513158 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAA-A
* * *
59513198 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
* * *
59513238 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
* *
59513277 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
* *
59513316 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59513342 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
38 7 0.04
39 54 0.35
40 84 0.54
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:59513363 original size:78 final size:79
Alignment explanation
Indices: 59513198--59513374 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 79
59513188 AGATACAAGT
* * * *
59513198 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
59513263 GTGCGAGTATTAAA
66 GAACGAGGACTAAA
* * * *
59513277 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
59513341 GAACGAGGAGCTATA
66 GAACGAGGA-CTAAA
*
59513356 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59513375 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 58 0.70
79 25 0.30
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGACTAAA
Found at i:59520712 original size:40 final size:39
Alignment explanation
Indices: 59520675--59520851 Score: 189
Period size: 39 Copynumber: 4.5 Consensus size: 39
59520665 ATATCCGGAC
*
59520675 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
59520715 TAAGCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* *
59520754 TAAGTCCCGAAGGCATTCGTGCGAG-TCATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGGT
* * * *
59520794 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
59520833 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
59520852 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 65 0.55
40 54 0.45
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:59520764 original size:79 final size:78
Alignment explanation
Indices: 59520628--59520851 Score: 215
Period size: 79 Copynumber: 2.8 Consensus size: 78
59520618 TTGAATGCTG
* * * * * * *
59520628 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
59520691 TTGTGCGAG-A-TACAA
63 TTGTGCGAGCATTA-AA
* * *
59520706 GTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 --TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCAT
*
59520770 TCGTGCGAGTCATTAAA
63 TTGTGCGAG-CATTAAA
* * *
59520787 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
59520852 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 88 0.72
80 28 0.23
81 4 0.03
82 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGCATTAAA
Found at i:59520869 original size:79 final size:80
Alignment explanation
Indices: 59520708--59520884 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
59520698 AGATACAAGT
* * *
59520708 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
59520772 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
59520787 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
59520851 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
59520866 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59520885 TATGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:59525905 original size:46 final size:44
Alignment explanation
Indices: 59525854--59525978 Score: 178
Period size: 46 Copynumber: 2.8 Consensus size: 44
59525844 ATGGTTGAGC
*
59525854 ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTA
1 ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *
59525898 ATGTCCGAACTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGA
1 A--TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
59525944 ACCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTA
1 ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTA
59525979 GGACGGGTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
44 30 0.42
46 41 0.58
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (44 bp):
ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:59529022 original size:42 final size:39
Alignment explanation
Indices: 59528976--59529065 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 39
59528966 GGACTAAGAT
*
59528976 CCGAAGGCATCTTGTGCCCGAGATAC-AAGTCCGGGTTAAG-CC
1 CCGAAGGCAT-TTGTG--CAAGATACTAA-TCC-GGTTAAGTCC
*
59529018 CCGAAGGCCTTTGTGCAAGATACTAATCCGGTTAAGTCC
1 CCGAAGGCATTTGTGCAAGATACTAATCCGGTTAAGTCC
59529057 CCGAAGGCA
1 CCGAAGGCA
59529066 GTCGTGCGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
38 7 0.16
39 20 0.47
40 2 0.05
41 5 0.12
42 9 0.21
ACGTcount: A:0.26, C:0.28, G:0.27, T:0.20
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCAAGATACTAATCCGGTTAAGTCC
Found at i:59544512 original size:46 final size:46
Alignment explanation
Indices: 59544445--59544618 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59544435 TGTAACCCGC
*
59544445 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
59544491 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
59544541 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
59544584 CCATAAGTGAACTCGGACTC-ACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
59544619 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 17 0.16
46 46 0.42
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:59544565 original size:93 final size:92
Alignment explanation
Indices: 59544452--59544622 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
59544442 CGCCCATAAG
* *
59544452 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTC-ACTCA
59544517 ACGAGTTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59544545 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCACTCAA
59544610 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59544623 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 19 0.25
93 56 0.75
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59551990 original size:93 final size:93
Alignment explanation
Indices: 59551877--59552048 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59551867 CGCCCATAAG
* *
59551877 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59551942 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59551970 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59552035 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59552049 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59552045 original size:46 final size:46
Alignment explanation
Indices: 59551870--59552045 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59551860 TGTAACCCGC
* * *
59551870 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59551916 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59551966 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59552009 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59552046 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59555696 original size:41 final size:41
Alignment explanation
Indices: 59555646--59555733 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
59555636 GTTTGTCTAT
* * *
59555646 AGAAAAGGAAGCGGTAGAAGAATAGAATTCAGAGAAATTTG
1 AGAACAGGAAGCGGTAGAAGAATAGAACTCAGAGAAATCTG
*
59555687 AGAACAGGAAGCGGTATAAGAATAGAACTCAGAGAAATCTG
1 AGAACAGGAAGCGGTAGAAGAATAGAACTCAGAGAAATCTG
59555728 AGAACA
1 AGAACA
59555734 ACAACAGAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.49, C:0.09, G:0.27, T:0.15
Consensus pattern (41 bp):
AGAACAGGAAGCGGTAGAAGAATAGAACTCAGAGAAATCTG
Found at i:59558795 original size:138 final size:136
Alignment explanation
Indices: 59558542--59558960 Score: 635
Period size: 138 Copynumber: 3.1 Consensus size: 136
59558532 GAGAATGTAG
* *
59558542 ATATAATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTA-TTGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCT-AATTTAT
* * * * *
59558606 TAATATAAACAGTTGTTTTAATTAATTTCTATCAAAATATAAAAGAAATGGAAATTAAAATTCTT
65 TAATATAAACAG-TATATTAATTAATTT-TGTCAAAATATAAAAGACATGGAAATTAATATTCTT
59558671 TTGGAAAGA
128 TTGGAAAGA
*
59558680 ATATAGTTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
59558745 AATATAAACAGGTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACA-GTATATTAATTAATTTT-GTCAAAATATAAAAGACATGGAAATTAATATTCTTT
59558810 TGGAAAGA
129 TGGAAAGA
* *
59558818 ATATAATTAATATATGAATTTGATTCATATAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
* * *
59558883 AATATAAATA-TATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTATTTT
66 AATATAAACAGTATATTAATTAATTT-TGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
**
59558947 AAAAAGA
130 GGAAAGA
59558954 ATATAAT
1 ATATAAT
59558961 CCCTTGTTCT
Statistics
Matches: 261, Mismatches: 16, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
136 63 0.24
137 1 0.00
138 195 0.75
139 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (136 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
AATATAAACAGTATATTAATTAATTTTGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
GAAAGA
Found at i:59559067 original size:78 final size:75
Alignment explanation
Indices: 59558949--59559090 Score: 212
Period size: 78 Copynumber: 1.9 Consensus size: 75
59558939 ATTATTTTAA
59558949 AAAGAATATAATCCCTTGTTCTAACTTTCCATTTGCCTTCTCTATTATTAATAAAGGAATAATCC
1 AAAGAATATAATCCCTTGTTCTAACTTTCCATTTGCC-T-TCT-TTATTAATAAAGGAATAATCC
59559014 TATATTCTTTTGG
63 TATATTCTTTTGG
** * * *
59559027 AAAGAATATAATTTCTTTTTCTAACTTTCCATTTGTCTTCTTTATTAATAAGGGAATAATCCTA
1 AAAGAATATAATCCCTTGTTCTAACTTTCCATTTGCCTTCTTTATTAATAAAGGAATAATCCTA
59559091 GTTTTCCTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
75 22 0.37
76 3 0.05
77 1 0.02
78 33 0.56
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (75 bp):
AAAGAATATAATCCCTTGTTCTAACTTTCCATTTGCCTTCTTTATTAATAAAGGAATAATCCTAT
ATTCTTTTGG
Found at i:59561211 original size:3 final size:3
Alignment explanation
Indices: 59561203--59561229 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
59561193 TATTCTGATT
59561203 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
59561230 TACCACCCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:59563818 original size:43 final size:43
Alignment explanation
Indices: 59563770--59563855 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
59563760 CCAATGAAAG
59563770 AAATTAAAGAGAACTACAATAAGATGGGCCTTTTTGTGCCTAT
1 AAATTAAAGAGAACTACAATAAGATGGGCCTTTTTGTGCCTAT
59563813 AAATTAAAGAGAACTACAATAAGATGGGCCTTTTTGTGCCTAT
1 AAATTAAAGAGAACTACAATAAGATGGGCCTTTTTGTGCCTAT
59563856 CACCTTACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (43 bp):
AAATTAAAGAGAACTACAATAAGATGGGCCTTTTTGTGCCTAT
Found at i:59565669 original size:28 final size:27
Alignment explanation
Indices: 59565616--59565694 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 27
59565606 ATTTTTTAAA
*
59565616 ATTTTAAAAATAAAAAAGTTATTAAAAATT
1 ATTTTAAAAAT-AAAAA-CTATT-AAAATT
*
59565646 ATTTTAAAAATAAAAACTATTAAAGTT
1 ATTTTAAAAATAAAAACTATTAAAATT
*
59565673 A-TTTAAAACATATAAACATATT
1 ATTTTAAAA-ATAAAAAC-TATT
59565695 TTTAATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.16
27 13 0.30
28 8 0.18
29 5 0.11
30 11 0.25
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.37
Consensus pattern (27 bp):
ATTTTAAAAATAAAAACTATTAAAATT
Found at i:59568532 original size:16 final size:17
Alignment explanation
Indices: 59568506--59568537 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
59568496 AAGTGATTGA
59568506 AAAAGTACAAAAAAAAG
1 AAAAGTACAAAAAAAAG
59568523 AAAA-TACAAAAAAAA
1 AAAAGTACAAAAAAAA
59568538 ATATTCCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAGTACAAAAAAAAG
Found at i:59581877 original size:49 final size:49
Alignment explanation
Indices: 59581796--59581924 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
59581786 TGAAACACCA
* * *
59581796 TTTGTGG-CAAGCCACCACTGATATGCATATATACTT-CCATTAATATATT
1 TTTGTGGACAAGCCACCACTAATATGCAGATATA-TTGCCACTAATATA-T
* * *
59581845 TTTGTGGACAAGCCACCAC-AATTTGTAGATATATTGCCACTGATATAT
1 TTTGTGGACAAGCCACCACTAATATGCAGATATATTGCCACTAATATAT
* * *
59581893 TTTGTGGACAAGCCACCATTGATTTGCAGATA
1 TTTGTGGACAAGCCACCACTAATATGCAGATA
59581925 ACTATCACTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 21 0.31
49 36 0.53
50 11 0.16
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTAATATGCAGATATATTGCCACTAATATAT
Found at i:59584149 original size:43 final size:43
Alignment explanation
Indices: 59584067--59584222 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
59584057 TGAGACATCG
* *
59584067 TGTAAGACCGTGTCTGGGACA-CAGGC-TTGA-ATTGCGATTTACA
1 TGTAAGACCATGTCTGGGACATC-GGCATCGATATT--GATTTACA
* *
59584110 TATAAGACTATGTCTGGGACATCGGCATCG-TATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACA
* **
59584152 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGATTTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
* * *
59584195 TGTAAGACCACGTCCGGGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
59584223 TGTACTTGTT
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 33 0.36
43 53 0.58
44 5 0.05
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
Found at i:59584214 original size:85 final size:84
Alignment explanation
Indices: 59584067--59584222 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 84
59584057 TGAGACATCG
* * * * *
59584067 TGTAAGACCGTGTCTGGGACACAGGCTTGAATTGCGATTTACATATAAGACTATGTCTGGGACAT
1 TGTAAGACCCTGTCTGGGACACAGGCTCGAATT-CGATTTACATATAAGACCACGTCCGGGACAT
59584132 CGGCATCGTATCTGATTTCA
65 CGGCATCGTATCTGATTTCA
* * *
59584152 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATT-GATTTACATGTAAGACCACGTCCGGGACG
1 TGTAAGACCCTGTCTGGGACACAGGC-TCGA-ATTCGATTTACATATAAGACCACGTCCGGGACA
59584216 TCGGCAT
64 TCGGCAT
59584223 TGTACTTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 55 0.90
86 3 0.05
87 3 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (84 bp):
TGTAAGACCCTGTCTGGGACACAGGCTCGAATTCGATTTACATATAAGACCACGTCCGGGACATC
GGCATCGTATCTGATTTCA
Found at i:59586185 original size:64 final size:64
Alignment explanation
Indices: 59586084--59586208 Score: 241
Period size: 64 Copynumber: 2.0 Consensus size: 64
59586074 TGGACTAAAC
59586084 GAAGATATCCGTCTGTTAGTTGGGATTTTGGAAATTAAAGAAATGGTAGTACTCGTTGAGCTAT
1 GAAGATATCCGTCTGTTAGTTGGGATTTTGGAAATTAAAGAAATGGTAGTACTCGTTGAGCTAT
*
59586148 GAAGATATCCGTCTGTTAGTTGGGATTTTGGAAATTAAAGAAATGGTAGTGCTCGTTGAGC
1 GAAGATATCCGTCTGTTAGTTGGGATTTTGGAAATTAAAGAAATGGTAGTACTCGTTGAGC
59586209 AAGCATGTAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.34
Consensus pattern (64 bp):
GAAGATATCCGTCTGTTAGTTGGGATTTTGGAAATTAAAGAAATGGTAGTACTCGTTGAGCTAT
Found at i:59603275 original size:15 final size:15
Alignment explanation
Indices: 59603242--59603275 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
59603232 AAATAAGAGA
* *
59603242 AAATGAAAAAGAAAT
1 AAATGAAAAAAAAAG
59603257 AAATGAAAAAAAAAG
1 AAATGAAAAAAAAAG
59603272 AAAT
1 AAAT
59603276 ATAGGAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAATGAAAAAAAAAG
Found at i:59610109 original size:18 final size:20
Alignment explanation
Indices: 59610094--59610130 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59610084 TAATAATAAA
*
59610094 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
59610114 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
59610131 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:59612200 original size:16 final size:16
Alignment explanation
Indices: 59612175--59612209 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59612165 GCAAATCCCA
*
59612175 AAATGTCGAAAAGCCG
1 AAATGCCGAAAAGCCG
*
59612191 AAATGCCGAAATGCCG
1 AAATGCCGAAAAGCCG
59612207 AAA
1 AAA
59612210 AGCTGAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:59612483 original size:29 final size:28
Alignment explanation
Indices: 59612431--59612524 Score: 136
Period size: 28 Copynumber: 3.3 Consensus size: 28
59612421 ATTGCATGAC
59612431 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
59612459 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* *
59612488 TATGAAAT-AGATTGGGCCTAGTGGGCCA
1 TATG-AATGTGATTGGGCCTAATGGGCCA
*
59612516 TATGCATGT
1 TATGAATGT
59612525 ATGTAGACTT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
27 2 0.03
28 31 0.53
29 23 0.39
30 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:59618219 original size:37 final size:38
Alignment explanation
Indices: 59618108--59618250 Score: 189
Period size: 37 Copynumber: 3.7 Consensus size: 38
59618098 GAATCCAGTC
* * * *
59618108 ACCAGCACAAAGCCTGCAGAACTTTAAGCCCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* *
59618148 ACCAGTACTAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
59618186 ACCAGCACGAAGCCTGCGGG-TTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
59618223 ACCAGGACGAAGCCTGCGGGACTTAACC
1 ACCAGCACGAAGCCTGCGGGATTTAACC
59618251 TAGATACGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
37 36 0.39
38 35 0.38
39 5 0.05
40 17 0.18
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:59623848 original size:40 final size:40
Alignment explanation
Indices: 59623803--59623994 Score: 219
Period size: 40 Copynumber: 4.8 Consensus size: 40
59623793 ATAACCACAA
* * *
59623803 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGT-AACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA-TCAACTC
59623843 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
** * *
59623883 ATACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
59623923 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
59623963 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
59623995 CATTCAAATG
Statistics
Matches: 138, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:59625156 original size:22 final size:22
Alignment explanation
Indices: 59625131--59625175 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
59625121 ATTACAAAGC
59625131 TTCACTTTTAGCATGCAAATGA
1 TTCACTTTTAGCATGCAAATGA
59625153 TTCACTTTTAGCATGCAAATGA
1 TTCACTTTTAGCATGCAAATGA
59625175 T
1 T
59625176 ATCAACACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCACTTTTAGCATGCAAATGA
Found at i:59632007 original size:40 final size:39
Alignment explanation
Indices: 59631963--59632152 Score: 206
Period size: 40 Copynumber: 4.8 Consensus size: 39
59631953 ATAACCACAA
* * *
59631963 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACT
*
59632002 CGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
1 -GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACT
* *
59632042 -CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACT
* * * *
59632080 AGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACT
1 -GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACT
* *
59632120 AGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 -GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
59632153 CATTCAAATG
Statistics
Matches: 139, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
38 32 0.23
39 5 0.04
40 102 0.73
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACT
Found at i:59632068 original size:78 final size:79
Alignment explanation
Indices: 59631964--59632151 Score: 229
Period size: 78 Copynumber: 2.4 Consensus size: 79
59631954 TAACCACAAG
* * * * * *
59631964 CACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGC-ACTAGCACAAATGCCTTCGGGACTTAGCC
*
59632028 CGGAT-ATATCAACT-
65 CGGATAAAATC-ACTA
* *
59632042 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCC
1 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGACTTAGCCC
59632107 GGATAAAATCACTA
66 GGATAAAATCACTA
* *
59632121 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 -CACAAATGCCTTCGGGTCTTAGCCCGGATA
59632152 TCATTCAAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
78 60 0.63
79 7 0.07
80 28 0.29
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGACTTAGCCC
GGATAAAATCACTA
Found at i:59634034 original size:39 final size:39
Alignment explanation
Indices: 59633975--59634093 Score: 184
Period size: 39 Copynumber: 3.1 Consensus size: 39
59633965 AGGGCTTTCA
*
59633975 CAGGCTATATGCTGGAAATATATCCGGACATGAAGTCCG
1 CAGGCTATATGCTAGAAATATATCCGGACATGAAGTCCG
* * * *
59634014 CAGGCTATATGCTTGTAATATATCCAGACATGAGGTCCG
1 CAGGCTATATGCTAGAAATATATCCGGACATGAAGTCCG
*
59634053 CAGGCTATATGCTAGAAATATATCCGGACTTGAAGTCCG
1 CAGGCTATATGCTAGAAATATATCCGGACATGAAGTCCG
59634092 CA
1 CA
59634094 AGCCACGTGC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (39 bp):
CAGGCTATATGCTAGAAATATATCCGGACATGAAGTCCG
Found at i:59640371 original size:40 final size:38
Alignment explanation
Indices: 59640325--59640477 Score: 198
Period size: 38 Copynumber: 4.0 Consensus size: 38
59640315 CCGAATCCAG
* * * *
59640325 TTACCAGCACAAAGCCTGCAGAACTTTAAGCCCAGATATA
1 TTACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATA
* * **
59640365 GTACCAGCACTAAGCCTGCGGGATTTAACATGGATATA
1 TTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
59640403 TTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 TTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
* *
59640441 TTACCAGCACGAAGCCTGCGAGACTTAACCCGGATAT
1 TTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
59640478 GTATCGAGTG
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 76 0.76
39 5 0.05
40 19 0.19
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
TTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
Found at i:59644615 original size:34 final size:34
Alignment explanation
Indices: 59644566--59644647 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
59644556 TGAAATAGGT
* **
59644566 TAAGGCCCACACTGATACTGTTACT-ATATTGGGC
1 TAAGGCCTACACTGATACTGCGACTGATA-TGGGC
* *
59644600 TAAGGCCTACCCTGATATTGCGACTGATATGGGC
1 TAAGGCCTACACTGATACTGCGACTGATATGGGC
* *
59644634 TTAGGCCTAGACTG
1 TAAGGCCTACACTG
59644648 TTCAACACTG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 36 0.92
35 3 0.08
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (34 bp):
TAAGGCCTACACTGATACTGCGACTGATATGGGC
Found at i:59649151 original size:41 final size:41
Alignment explanation
Indices: 59649094--59649178 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
59649084 GGTGCAGTGG
* * *
59649094 ACACATGGCCTGACTGCACGCTATGGGGCAGACCGTGTGTC
1 ACACACGGCCTGACTGCACACTATGGGGCAGACAGTGTGTC
59649135 ACACACGGCCTGACTGCACACTATGGGGCAGACAGTGTGTC
1 ACACACGGCCTGACTGCACACTATGGGGCAGACAGTGTGTC
59649176 ACA
1 ACA
59649179 TACGACCTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.18
Consensus pattern (41 bp):
ACACACGGCCTGACTGCACACTATGGGGCAGACAGTGTGTC
Found at i:59650066 original size:17 final size:17
Alignment explanation
Indices: 59650044--59650080 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
59650034 GAGTGGCCAA
*
59650044 TCCTAATCCCTCACAGC
1 TCCTAATCCCCCACAGC
59650061 TCCTAATCCCCCACAGC
1 TCCTAATCCCCCACAGC
59650078 TCC
1 TCC
59650081 AAGCCCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.51, G:0.05, T:0.22
Consensus pattern (17 bp):
TCCTAATCCCCCACAGC
Found at i:59650449 original size:28 final size:28
Alignment explanation
Indices: 59650394--59650503 Score: 145
Period size: 28 Copynumber: 4.0 Consensus size: 28
59650384 AGCATGGCTG
* *
59650394 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* * *
59650420 CCAGATACAGATAGTTGTGGTAGGGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
59650448 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
59650476 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
59650503 C
1 C
59650504 TAGAACGCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.07
27 29 0.40
28 39 0.53
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:59650493 original size:55 final size:55
Alignment explanation
Indices: 59650394--59650508 Score: 153
Period size: 55 Copynumber: 2.1 Consensus size: 55
59650384 AGCATGGCTG
* * *
59650394 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATAGTTGTGGTAGGGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATAGTTGTGGCAGAGCCA
* *
59650448 CCAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATACAGATAGTTGTGGCAGAGCCA
*
59650503 CTAGAA
1 CCAGAA
59650509 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 4 0.08
55 31 0.58
56 18 0.34
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATAGTTGTGGCAGAGCCA
Found at i:59652851 original size:48 final size:47
Alignment explanation
Indices: 59652780--59653052 Score: 214
Period size: 48 Copynumber: 5.7 Consensus size: 47
59652770 GTAAATTACT
* * *
59652780 GATGCCCTGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGTC
*
59652828 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-TAT-AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAATGT---C
* * * *
59652876 AACGCCATGTCCCAGACATGGTCTTACACTAG-TACACTTATCAACG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTC-TATCAATGTC
* * * * * * *
59652923 TGATGCCATGTTCCAAACATGGTCTGACACTGGCTCTCATAACATTGCC
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGTC
* * * * * * * *
59652972 AATGCCGTGTTCCAAACATGGTCTTTCACTAGCACAC-ATAATATGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCA-AT-GTC
59653020 GATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
59653053 ACACATATCA
Statistics
Matches: 177, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
45 5 0.03
46 4 0.02
47 3 0.02
48 157 0.89
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAATGTC
Found at i:59652953 original size:96 final size:96
Alignment explanation
Indices: 59652787--59653049 Score: 271
Period size: 96 Copynumber: 2.7 Consensus size: 96
59652777 ACTGATGCCC
* * * * *
59652787 TGTCCTAGACATGGTCTTACACTAGCT-CTCGTCTCAATGTCGATGCCATGTCCCAGACATGGTC
1 TGTCCCAGACATGGTCTTACACTAG-TACACGTATCAACGTCGATGCCATGTCCCAAACATGGTC
* * **
59652851 TTACACTGGCTCTTATAATGTGGCCAACGCCA
65 TGACACTGGCTCTCATAACATGGCCAACGCCA
* *
59652883 TGTCCCAGACATGGTCTTACACTAGTACACTTATCAACG-CTGATGCCATGTTCCAAACATGGTC
1 TGTCCCAGACATGGTCTTACACTAGTACACGTATCAACGTC-GATGCCATGTCCCAAACATGGTC
* * *
59652947 TGACACTGGCTCTCATAACATTGCCAATGCCG
65 TGACACTGGCTCTCATAACATGGCCAACGCCA
* * * * * ** *
59652979 TGTTCCAAACATGGTCTTTCACTAGCACACATAAT-ATGGTCGATGCCATGTCCCAGACATGGTC
1 TGTCCCAGACATGGTCTTACACTAGTACACGT-ATCAACGTCGATGCCATGTCCCAAACATGGTC
*
59653043 TTACACT
65 TGACACT
59653050 AGCACACATA
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
95 2 0.01
96 134 0.96
97 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (96 bp):
TGTCCCAGACATGGTCTTACACTAGTACACGTATCAACGTCGATGCCATGTCCCAAACATGGTCT
GACACTGGCTCTCATAACATGGCCAACGCCA
Found at i:59653053 original size:48 final size:48
Alignment explanation
Indices: 59652827--59653059 Score: 216
Period size: 48 Copynumber: 4.9 Consensus size: 48
59652817 GTCTCAATGT
* * ** *
59652827 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATATGGC
* * * * **
59652875 CAACGCCATGTCCCAGACATGGTCTTACACTAGTACAC-TTATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAAT-ATGGC
* * * * * * * * *
59652923 TGATGCCATGTTCCAAACATGGTCTGACACTGGCTCTCATAACATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATATGGC
* * * * * *
59652971 CAATGCCGTGTTCCAAACATGGTCTTTCACTAGCACACATAATATGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATATGGC
59653019 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATA
59653060 TCACCCAAAT
Statistics
Matches: 142, Mismatches: 41, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
47 3 0.02
48 137 0.96
49 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATATGGC
Found at i:59654303 original size:45 final size:45
Alignment explanation
Indices: 59654252--59654377 Score: 166
Period size: 44 Copynumber: 2.8 Consensus size: 45
59654242 GCTGTTACAA
* *
59654252 AGTAAGACCATAGTTGAAAGACGTTATGGCATGAC-AGTTCTATTG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGA-TTCTATTG
*
59654297 AGTAAGACCATAGCTGAAA-ACATTATGGCATCACGATTCTATTG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATTG
* * * *
59654341 AGTGAGACCATAGCTAAAAGATGTTATGACATCACGA
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGA
59654378 ATCAAAGAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
44 38 0.54
45 33 0.46
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATTG
Found at i:59656885 original size:15 final size:12
Alignment explanation
Indices: 59656848--59656884 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
59656838 TTATATATTA
59656848 AGTTATAATAAT
1 AGTTATAATAAT
59656860 AGTTATAATAAT
1 AGTTATAATAAT
59656872 AGTTATAATAAT
1 AGTTATAATAAT
59656884 A
1 A
59656885 AAAACAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (12 bp):
AGTTATAATAAT
Found at i:59656893 original size:24 final size:24
Alignment explanation
Indices: 59656848--59656893 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
59656838 TTATATATTA
*** *
59656848 AGTTATAATAATAGTTATAATAAT
1 AGTTATAATAATAAAAACAATAAT
59656872 AGTTATAATAATAAAAACAATA
1 AGTTATAATAATAAAAACAATA
59656894 GAATGTTTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (24 bp):
AGTTATAATAATAAAAACAATAAT
Found at i:59657685 original size:25 final size:25
Alignment explanation
Indices: 59657637--59657685 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
59657627 CATAATTGAA
* *
59657637 ATGAAATAGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
59657662 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
59657686 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:59658117 original size:18 final size:19
Alignment explanation
Indices: 59658094--59658179 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 19
59658084 GAAATGACAA
59658094 AGATGAGAAATG-AATATG
1 AGATGAGAAATGTAATATG
*
59658112 AGATGAGAAAATGTTAAAATGG
1 AGATGAG-AAATG-TAATAT-G
*
59658134 AAAAGATGAGAAATG-ATTATG
1 ---AGATGAGAAATGTAATATG
* *
59658155 AAATGAGAAATGAAATATG
1 AGATGAGAAATGTAATATG
*
59658174 AAATGA
1 AGATGA
59658180 TGAATTGAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
18 18 0.33
19 16 0.29
21 5 0.09
22 4 0.07
24 5 0.09
25 7 0.13
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (19 bp):
AGATGAGAAATGTAATATG
Found at i:59661940 original size:28 final size:28
Alignment explanation
Indices: 59661900--59661991 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
59661890 TGTACTAGAG
59661900 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
59661928 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
59661956 TACCCCTATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
59661984 TACCCCTA
1 TACCCCTA
59661992 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:59662155 original size:27 final size:28
Alignment explanation
Indices: 59662097--59662186 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
59662087 AGGAAGCGTC
*
59662097 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
59662125 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
59662152 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
59662181 CTGGTG
1 CTGGTG
59662187 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:59662197 original size:29 final size:28
Alignment explanation
Indices: 59662107--59662197 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
59662097 CTGGTGGCTA
* * *
59662107 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
59662135 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
59662162 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
59662191 TGTCACA
1 TGCCACA
59662198 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:59662205 original size:55 final size:56
Alignment explanation
Indices: 59662097--59662211 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
59662087 AGGAAGCGTC
* * *
59662097 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
59662152 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
59662208 CTGG
1 CTGG
59662212 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:59669777 original size:28 final size:28
Alignment explanation
Indices: 59669737--59669825 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
59669727 TGTACTAGAG
*
59669737 TACCCCTACGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
59669765 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
59669793 TACCCCTATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
59669821 TACCC
1 TACCC
59669826 GTAGGGTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 57 0.98
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:59669966 original size:28 final size:27
Alignment explanation
Indices: 59669934--59670034 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 27
59669924 AGGAAGCGTC
*
59669934 CTGGTGGCTATACCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAA-TATCTGTT
** **
59669962 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
59669989 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCAC-AAATATCTGT-T
* *
59670018 CTGGTGACTATGTCACA
1 CTGGTGGCTATGCCACA
59670035 TTTTCTGTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 22 0.37
28 23 0.39
29 13 0.22
30 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAAATATCTGTT
Found at i:59669992 original size:27 final size:28
Alignment explanation
Indices: 59669946--59670023 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
59669936 GGTGGCTATA
* *
59669946 CCACAAATTATCTGTTCTGGTGGCCCTG
1 CCACAAAATATCTGTTCTGGTGGCACTG
**
59669974 CCAC-GTATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGGCACTG
59670001 CCACAAAATATCTGTATCTGGTG
1 CCACAAAATATCTGT-TCTGGTG
59670024 ACTATGTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.55
28 12 0.29
29 7 0.17
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGGCACTG
Found at i:59670525 original size:13 final size:14
Alignment explanation
Indices: 59670501--59670529 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
59670491 ATGGTTTTTT
59670501 TTTTACTTTTATTA
1 TTTTACTTTTATTA
59670515 TTTTA-TTTTATTA
1 TTTTACTTTTATTA
59670528 TT
1 TT
59670530 ATGAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTACTTTTATTA
Found at i:59674367 original size:40 final size:39
Alignment explanation
Indices: 59674337--59674506 Score: 270
Period size: 40 Copynumber: 4.3 Consensus size: 39
59674327 GCTACTCGTT
* *
59674337 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
59674377 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
*
59674417 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
*
59674456 CAAATGCCTTCGGGACTT-ACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
59674494 CAAATGCCTTCGG
1 CAAATGCCTTCGG
59674507 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 31 0.25
39 31 0.25
40 58 0.48
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:59674455 original size:39 final size:39
Alignment explanation
Indices: 59674337--59674556 Score: 268
Period size: 40 Copynumber: 5.6 Consensus size: 39
59674327 GCTACTCGTT
* * *
59674337 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATT-TAGTAACTCGCA
*
59674377 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
59674417 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
59674456 CAAATGCCTTCGGGACTT-ACCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
** * * * *
59674494 CAAATGCCTTC-GGATCTTAGTCCGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGATTTAGTAAC-TCGCA
*
59674534 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
59674557 GACATCATTC
Statistics
Matches: 161, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
37 3 0.02
38 33 0.20
39 56 0.35
40 66 0.41
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
Found at i:59674542 original size:77 final size:78
Alignment explanation
Indices: 59674337--59674558 Score: 279
Period size: 77 Copynumber: 2.8 Consensus size: 78
59674327 GCTACTCGTT
* * * *
59674337 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCC-GATATAGTAACTAGCACAAATGCCTTCGGGACTT-ACCCGG
*
59674402 ATTTAGTGACTCGCA
64 ATTTAGTAACTCGCA
* *
59674417 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAATGCCTTCGGGACTTACCCGGA-
1 CAAATGCCTTCGGGACTTAACCCGATATAGTAACTAGCACAAATGCCTTCGGGACTTACCCGGAT
59674481 TTAGTAACTCGCA
66 TTAGTAACTCGCA
** * *
59674494 CAAATGCCTTC-GGATCTTAGTCCGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTA-CCCG
59674557 GA
63 GA
59674559 CATCATTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
76 3 0.02
77 51 0.40
78 21 0.16
79 32 0.25
80 21 0.16
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGATATAGTAACTAGCACAAATGCCTTCGGGACTTACCCGGAT
TTAGTAACTCGCA
Found at i:59682353 original size:40 final size:40
Alignment explanation
Indices: 59682134--59682359 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
59682124 GCTACTCGTT
* *
59682134 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
59682174 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59682214 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59682254 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
59682294 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
59682335 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59682360 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59687057 original size:46 final size:46
Alignment explanation
Indices: 59686913--59687270 Score: 339
Period size: 46 Copynumber: 7.7 Consensus size: 46
59686903 ATTGTTGGCT
* * * **
59686913 AGTGTAAAACATGTCTGGGATATGCATCGGCCACGTTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCC
* * * *
59686959 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGCC
59687007 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGCC
* * *
59687053 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGAGCC
* *
59687099 AGTGTAAGACATGTCTGGGACATGAATTGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGCC
* * * * * *
59687145 AGTGTAAGATATGTCTGGCACATGCATCGG-CTACTAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGAGCC
* * * ** * *
59687191 GGTGTAAGACCATGTTTGGGACATGGCATC-GACTTAAGATGCGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGCC
*
59687238 AGTGTAAGATCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
59687271 ACCTTACGCA
Statistics
Matches: 259, Mismatches: 40, Indels: 24
0.80 0.12 0.07
Matches are distributed among these distances:
45 6 0.02
46 143 0.55
47 77 0.30
48 33 0.13
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCC
Found at i:59687120 original size:92 final size:94
Alignment explanation
Indices: 59686913--59687270 Score: 399
Period size: 92 Copynumber: 3.8 Consensus size: 94
59686903 ATTGTTGGCT
* * * **
59686913 AGTGTAAAACATGTCTGGGATATGCATCGGCCACGTTACG-AGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCCAGTGTAAGACCATGTCTG
* * * *
59686977 GGACATGGCATCGAC-ATTGAGACGAGAG-C
65 GGACATGGCATCGGCTA-CGAGATGATAGTC
59687006 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGA-CATGTCTG
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACCATGTCTG
59687070 GGACAT-GCATCGGCTACGAGATGATAGTC
65 GGACATGGCATCGGCTACGAGATGATAGTC
* * *
59687099 AGTGTAAGACATGTCTGGGACATGAATTGGCCTCGAGACGTAAGCCAGTGTAAGA-TATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACCATGTCTGG
* *
59687163 CACAT-GCATCGGCTACTAGATGATAGTC
66 GACATGGCATCGGCTACGAGATGATAGTC
* * * ** * ** *
59687191 GGTGTAAGACCATGTTTGGGACATGGCATC-GACTTAAGATGCGAGCCAGTGTAAGATCATGTCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCCAGTGTAAGACCATGTCT
*
59687255 AGGACATGGCATCGGC
64 GGGACATGGCATCGGC
59687271 ACCTTACGCA
Statistics
Matches: 230, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
92 110 0.48
93 49 0.21
94 62 0.27
95 9 0.04
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCTACGAGATGATAGTC
Found at i:59694680 original size:46 final size:46
Alignment explanation
Indices: 59694533--59694845 Score: 294
Period size: 46 Copynumber: 6.7 Consensus size: 46
59694523 GTTATTGTTG
* ** *
59694533 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
* * * * *
59694579 GCCAGTGTAGGACCATGTCTGGGACATGGCATCGACATTAAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGAGA
*
59694627 GTTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGA
* * * * *
59694673 GCCAGTGTAAGACATGTTTGGGACATGCATC-GACTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGAGA
* * * *
59694719 GTTAGTGTAAGACCATGTTTGGGACATGGCATC-GACTCGAGATGTA-A
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATG-AGA
* * *
59694766 GCTAGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGAGA
*
59694812 GTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
59694846 ACTTGAGACA
Statistics
Matches: 227, Mismatches: 27, Indels: 24
0.82 0.10 0.09
Matches are distributed among these distances:
45 11 0.05
46 103 0.45
47 76 0.33
48 37 0.16
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
Found at i:59694760 original size:47 final size:48
Alignment explanation
Indices: 59694533--59694890 Score: 325
Period size: 47 Copynumber: 7.7 Consensus size: 48
59694523 GTTATTGTTG
* * * *
59694533 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-ACATTACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGA-TA-A
* * ** *
59694579 GCCAGTGTAGGACCATGTCTGGGACATGGCATCGACATTAAGATGA-GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGATGATAA
* * *
59694627 GTTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATG-TAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATGATAA
* *
59694673 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGACTACGAGATGAT-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGATGATAA
* *
59694719 GTTAGTGTAAGACCATGTTTGGGACATGGCATCGACTCGAGATG-TAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGATAA
* *
59694766 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTACGAGATGAT-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGATGATAA
* * * *
59694812 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-CATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGATAA
* * *
59694859 GCCAGTGTAAAACCATGTCTAGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
59694891 GGGCACAGTA
Statistics
Matches: 262, Mismatches: 33, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
45 10 0.04
46 103 0.39
47 112 0.43
48 33 0.13
51 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGATAA
Found at i:59694762 original size:93 final size:94
Alignment explanation
Indices: 59694578--59694886 Score: 405
Period size: 93 Copynumber: 3.3 Consensus size: 94
59694568 ACATTACGAG
* *
59694578 AGCCAGTGTAGGACCATGTCTGGGACATGGCATCGACATTA--AGATGAGAGTTAGTGTAAGA-C
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC--TACGAGATGATAGTTAGTGTAAGACC
* *
59694640 ATGTCTGGGACAT-GCATCGGCCTCAAGATGTA
63 ATGTCTGGGACATGGCATC-GACTCGAGATGTA
*
59694672 AGCCAGTGTAAGA-CATGTTTGGGACATGCATCGACTACGAGATGATAGTTAGTGTAAGACCATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGATGATAGTTAGTGTAAGACCATG
*
59694736 TTTGGGACATGGCATCGACTCGAGATGTA
66 TCTGGGACATGGCATCGACTCGAGATGTA
* * *
59694765 AGCTAGTGTAAGA-CATGTCTGGGACATGCATTGGCTACGAGATGATAGTTAGTGTAAGACCATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGATGATAGTTAGTGTAAGACCATG
* ** *
59694829 TCTGGGACATGGCATCGACTTGAGACATG
66 TCTGGGACATGGCATCGACTCGAGATGTA
* *
59694858 AGCCAGTGTAAAACCATGTCTAGGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATG
59694887 GCATGGGCAC
Statistics
Matches: 192, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
90 2 0.01
92 27 0.14
93 132 0.69
94 31 0.16
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGATGATAGTTAGTGTAAGACCATG
TCTGGGACATGGCATCGACTCGAGATGTA
Found at i:59694866 original size:140 final size:139
Alignment explanation
Indices: 59694533--59694890 Score: 413
Period size: 140 Copynumber: 2.6 Consensus size: 139
59694523 GTTATTGTTG
* * * * *
59694533 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGA-GAGCCAGTGTAGGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTAGA-GAC-ATGAGCCAGTGTAAGACCATGT
* *
59694597 CTGGGACATGGCATCGACATTAAGATGAGAGTTAGTGTAAGACATGTCTGGGACATGCATCGGCC
64 CTGGGACATGGCATCGACATCAAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
59694662 TCAAGATGTAA
129 TCAAGATGTAA
* * * **
59694673 GCCAGTGTAAGACATGTTTGGGACATGCATCGACTACGAGATGAT-AGTTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTA-GAGA-CATGAGCCAGTGTAAGACCATGT
* * *
59694737 TTGGGACATGGCATCGAC-TCGAGATGTA-AGCTAGTGTAAGACATGTCTGGGACATGCATTGG-
64 CTGGGACATGGCATCGACATCAAGATG-AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
*
59694799 CTACGAGATG-ATA
128 CT-CAAGATGTA-A
* * *
59694812 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACATGAGCCAGTGTAAAACCATGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTAGAGACATGAGCCAGTGTAAGACCATGT
*
59694877 CTAGGACATGGCAT
64 CTGGGACATGGCAT
59694891 GGGCACAGTA
Statistics
Matches: 183, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
138 3 0.02
139 57 0.31
140 113 0.62
141 10 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (139 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTAGAGACATGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGACATCAAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
AAGATGTAA
Found at i:59702138 original size:14 final size:13
Alignment explanation
Indices: 59702111--59702144 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
59702101 TCATTCATAT
59702111 TTTTCTTTTC-T-
1 TTTTCTTTTCATC
59702122 TTTTCTTTTCATC
1 TTTTCTTTTCATC
59702135 TTTTCTTTTC
1 TTTTCTTTTC
59702145 TCCATAGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTTTCATC
Found at i:59703265 original size:27 final size:27
Alignment explanation
Indices: 59703227--59703333 Score: 101
Period size: 28 Copynumber: 3.9 Consensus size: 27
59703217 GAGGAAGCAT
59703227 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
59703254 TCTGGTGGCTCTACCACAAATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * * *
59703280 TTTCTTGTGGCCCTGCCATAATTATCTGTA
1 --TCTGGTGGCTCTGCCACAAATATCTG-A
* * *
59703310 TCTGTTGACTCTGTCAC-AATATCT
1 TCTGGTGGCTCTGCCACAAATATCT
59703334 ATTCTAGCAG
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
26 1 0.02
27 30 0.48
28 31 0.49
30 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:59703331 original size:55 final size:55
Alignment explanation
Indices: 59703226--59703336 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
59703216 GGAGGAAGCA
* *
59703226 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTACCACAAATATCTAT
1 TTCTGGTGGCCCTGCCACAAATATCTGATCTGGTGACTCTACCACAAATATCTAT
* * * * **
59703281 TTCTTGTGGCCCTGCCATAATTATCTGTATCTGTTGACTCTGTCAC-AATATCTAT
1 TTCTGGTGGCCCTGCCACAAATATCTG-ATCTGGTGACTCTACCACAAATATCTAT
59703336 T
1 T
59703337 CTAGCAGCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 33 0.70
56 14 0.30
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (55 bp):
TTCTGGTGGCCCTGCCACAAATATCTGATCTGGTGACTCTACCACAAATATCTAT
Found at i:59706038 original size:14 final size:14
Alignment explanation
Indices: 59706019--59706062 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
59706009 CATAACTTAT
59706019 ATTATATACATATA
1 ATTATATACATATA
* *
59706033 ATTATATACATTTT
1 ATTATATACATATA
59706047 ATTACTATAACATATA
1 ATTA-TAT-ACATATA
59706063 TATATTGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:59707547 original size:25 final size:24
Alignment explanation
Indices: 59707515--59707634 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
59707505 GCTTTATCAT
*
59707515 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
59707540 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59707564 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59707588 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59707612 ATAACTGGGACATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
59707635 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 76 0.86
25 12 0.14
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:59707709 original size:20 final size:20
Alignment explanation
Indices: 59707684--59707750 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
59707674 TTATGAATAC
*
59707684 ATCATGTGCCTATCATACAT
1 ATCATGTGCATATCATACAT
59707704 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59707724 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59707744 GTCATGT
1 ATCATGT
59707751 TTATCAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59711058 original size:43 final size:42
Alignment explanation
Indices: 59710922--59711073 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 42
59710912 TCAAACAATT
* * * *
59710922 CCAATGTCCTAGACGTGGTCTTACATGCT-ATCTCATATCGATG
1 CCAACGTCCTAGACATGGTCTTACACG-TAATCACA-ATCGATG
* * *
59710965 CC-ACTGTCCCAGATAGGGTCTTACACG-AATCA-AATACGATG
1 CCAAC-GTCCTAGACATGGTCTTACACGTAATCACAAT-CGATG
* * *
59711006 CCGATGTCCTAGACATGGTCTTACACGTAATCACAGATTGATG
1 CCAACGTCCTAGACATGGTCTTACACGTAATCACA-ATCGATG
**
59711049 CCAACGTCCTAGATGTGGTCTTACA
1 CCAACGTCCTAGACATGGTCTTACA
59711074 TGAGAACACA
Statistics
Matches: 86, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.02
41 27 0.31
42 10 0.12
43 45 0.52
44 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (42 bp):
CCAACGTCCTAGACATGGTCTTACACGTAATCACAATCGATG
Found at i:59720343 original size:12 final size:12
Alignment explanation
Indices: 59720322--59720433 Score: 61
Period size: 12 Copynumber: 9.2 Consensus size: 12
59720312 ATTATTTTCC
59720322 TATATATTTATAT
1 TATAT-TTTATAT
59720335 TATATTTTAT-T
1 TATATTTTATAT
**
59720346 ATATAACATT-TAT
1 -TAT-ATTTTATAT
59720359 TATATTTT-TAT
1 TATATTTTATAT
*
59720370 TATATATTACTTAT
1 TATATTTTA--TAT
*
59720384 TATATTTTTTAT
1 TATATTTTATAT
* *
59720396 TATATGTTAT-G
1 TATATTTTATAT
**
59720407 TATATCGTATAT
1 TATATTTTATAT
* *
59720419 TATCTGTTATAT
1 TATATTTTATAT
59720431 TAT
1 TAT
59720434 TTATGTTTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
11 22 0.29
12 35 0.46
13 9 0.12
14 10 0.13
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:59720367 original size:25 final size:25
Alignment explanation
Indices: 59720332--59720400 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
59720322 TATATATTTA
*
59720332 TATTATA-TTTTATTATATAACATT
1 TATTATATTTTTATTATATAACACT
**
59720356 TATTATATTTTTATTATATATTACT
1 TATTATATTTTTATTATATAACACT
59720381 TATTATATTTTTTATTATAT
1 TATTATA-TTTTTATTATAT
59720401 GTTATGTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.17
25 21 0.52
26 12 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTATATTTTTATTATATAACACT
Done.