Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 155 of 226
Found at i:48311764 original size:24 final size:24
Alignment explanation
Indices: 48311721--48311790 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
48311711 GCTCAGAATC
48311721 AGTCATACAAAT-ACAGACAAATA
1 AGTCATACAAATCACAGACAAATA
* *
48311744 AGTCATACCAATCACAGACAAATC
1 AGTCATACAAATCACAGACAAATA
* **
48311768 AGTCTTTTAAATCACAGACAAAT
1 AGTCATACAAATCACAGACAAAT
48311791 CAATCATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 11 0.28
24 29 0.73
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (24 bp):
AGTCATACAAATCACAGACAAATA
Found at i:48311791 original size:24 final size:24
Alignment explanation
Indices: 48311753--48311824 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
48311743 AAGTCATACC
* *
48311753 AATCACAGACAAATCAGTCTTTTA
1 AATCACAGACAAATCAATCATTTA
48311777 AATCACAGACAAATCAATCATTTA
1 AATCACAGACAAATCAATCATTTA
* * *
48311801 CATCAC-GAACATATTAATCATTTA
1 AATCACAG-ACAAATCAATCATTTA
48311825 CACTCGAGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (24 bp):
AATCACAGACAAATCAATCATTTA
Found at i:48311899 original size:27 final size:26
Alignment explanation
Indices: 48311856--48312121 Score: 155
Period size: 27 Copynumber: 9.8 Consensus size: 26
48311846 ATTTAACCTC
*
48311856 TAGGGGCATTACGGTCATTTTACCTTA
1 TAGGGGTATTAC-GTCATTTTACCTTA
* * * *
48311883 CAGAGGTATTTCAGTCA-TTTAACTCTA
1 TAGGGGTATTAC-GTCATTTTACCT-TA
* *
48311910 TAGGGGTATTACGATTATTTTACCCTA
1 TAGGGGTATTACG-TCATTTTACCTTA
*
48311937 TAGGGGCATTACGATCATTTTATCC-TA
1 TAGGGGTATTACG-TCATTTTA-CCTTA
* * *
48311964 T-GGAGGTCTTTCAATCATTTTACCTTA
1 TAGG-GGTATTAC-GTCATTTTACCTTA
*
48311991 CAGGGGTATTACGGTCATTTTACCTTA
1 TAGGGGTATTAC-GTCATTTTACCTTA
* *
48312018 TAGGGGCT-TTATGGTTATTTTATCC-TA
1 TAGGGG-TATTA-CGTCATTTTA-CCTTA
** * *
48312045 CGGGGGCATTACCGTCATTTTACCCTA
1 TAGGGGTATTA-CGTCATTTTACCTTA
* * * * *
48312072 TGGGGGTTTTTCGGTTATTTTACCCTA
1 TAGGGGTATTAC-GTCATTTTACCTTA
48312099 TAGGGGTATTACAGTCATTTTAC
1 TAGGGGTATTAC-GTCATTTTAC
48312122 AAATATTAGG
Statistics
Matches: 183, Mismatches: 42, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
26 14 0.08
27 157 0.86
28 12 0.07
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (26 bp):
TAGGGGTATTACGTCATTTTACCTTA
Found at i:48311943 original size:81 final size:80
Alignment explanation
Indices: 48311847--48312120 Score: 289
Period size: 81 Copynumber: 3.4 Consensus size: 80
48311837 AAAATATTCA
* * * *
48311847 TTTAACCTCTAGGGGCATTACGGTCATTTTA-CCTTACAGAGGTATTTCAGTCATTTAACTCTAT
1 TTTACCCTATAGGGGCATTACGGTCATTTTATCC-TACGGAGGTATTTCAGTCATTTTAC-CTAT
*
48311911 AGGGGTATTACGATTAT
64 AGGGGTATTACGGTTAT
* * * * *
48311928 TTTACCCTATAGGGGCATTACGATCATTTTATCCTATGGAGGTCTTTCAATCATTTTACCTTACA
1 TTTACCCTATAGGGGCATTACGGTCATTTTATCCTACGGAGGTATTTCAGTCATTTTACC-TATA
*
48311993 GGGGTATTACGGTCAT
65 GGGGTATTACGGTTAT
* * * * * * * * *
48312009 TTTACCTTATAGGGGCTTTATGGTTATTTTATCCTACGGGGGCATTACCGTCATTTTACCCTATG
1 TTTACCCTATAGGGGCATTACGGTCATTTTATCCTACGGAGGTATTTCAGTCATTTTA-CCTATA
* *
48312074 GGGGTTTTTCGGTTAT
65 GGGGTATTACGGTTAT
* *
48312090 TTTACCCTATAGGGGTATTACAGTCATTTTA
1 TTTACCCTATAGGGGCATTACGGTCATTTTA
48312121 CAAATATTAG
Statistics
Matches: 156, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
80 1 0.01
81 151 0.97
82 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (80 bp):
TTTACCCTATAGGGGCATTACGGTCATTTTATCCTACGGAGGTATTTCAGTCATTTTACCTATAG
GGGTATTACGGTTAT
Found at i:48311955 original size:54 final size:53
Alignment explanation
Indices: 48311844--48312121 Score: 206
Period size: 54 Copynumber: 5.2 Consensus size: 53
48311834 GGCAAAATAT
* * * * * * *
48311844 TCATTTAACCTCTAGGGGCATTACGGTCATTTTACCTTACAGAGGTATTTC-A
1 TCATTTTACCTATAGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGA
* * * *
48311896 GTCATTTAACTCTATAGGGGTATTACGATTATTTTACCCTATAGGGGCATTACGA
1 -TCATTTTAC-CTATAGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGA
* * ** * * *
48311951 TCATTTTATCCTAT-GGAGGTCTTTCAATCATTTTACCTTACAGGGGTATTACGG
1 TCATTTTA-CCTATAGG-GGTATTACGGTTATTTTACCCTACAGGGGTATTACGA
* * * *
48312005 TCATTTTACCTTATAGGGGCT-TTATGGTTATTTTATCCTACGGGGGCATTACCG-
1 TCATTTTACC-TATAGGGG-TATTACGGTTATTTTACCCTACAGGGGTATTA-CGA
* * * *
48312059 TCATTTTACCCTATGGGGGTTTTTCGGTTATTTTACCCTATAGGGGTATTAC-A
1 TCATTTTA-CCTATAGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGA
48312112 GTCATTTTAC
1 -TCATTTTAC
48312122 AAATATTAGG
Statistics
Matches: 179, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
53 16 0.09
54 154 0.86
55 9 0.05
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (53 bp):
TCATTTTACCTATAGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGA
Found at i:48315526 original size:15 final size:15
Alignment explanation
Indices: 48315508--48315537 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48315498 TTTAATGGAA
48315508 ATGATTTTAACGCGT
1 ATGATTTTAACGCGT
48315523 ATGATTTTAACGCGT
1 ATGATTTTAACGCGT
48315538 CGACATGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
ATGATTTTAACGCGT
Found at i:48319368 original size:15 final size:16
Alignment explanation
Indices: 48319348--48319377 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48319338 TGGTGCCTTG
48319348 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
48319363 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
48319378 AGCGTGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:48324125 original size:27 final size:27
Alignment explanation
Indices: 48324095--48324166 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
48324085 ATTCAGAGTT
48324095 CGCCACAAA-GTTTATTCTTTGATATTA
1 CGCCACAAAGGTTT-TTCTTTGATATTA
* *
48324122 CGCCACAAAGGTGTTTCTTTTATATTA
1 CGCCACAAAGGTTTTTCTTTGATATTA
48324149 CAG-CACAAAGGTTTTTCT
1 C-GCCACAAAGGTTTTTCT
48324167 ATCCTGATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (27 bp):
CGCCACAAAGGTTTTTCTTTGATATTA
Found at i:48325668 original size:21 final size:22
Alignment explanation
Indices: 48325635--48325692 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
48325625 TAATTATAAA
* *
48325635 AATTAACACAAATTTTATAT-C
1 AATTAATATAAATTTTATATAC
**
48325656 AATTAATATAAA-TCAATATAC
1 AATTAATATAAATTTTATATAC
*
48325677 AATTAATATTAATTTT
1 AATTAATATAAATTTT
48325693 TTAATCATCT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 5 0.18
21 22 0.79
22 1 0.04
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTAATATAAATTTTATATAC
Found at i:48326134 original size:23 final size:22
Alignment explanation
Indices: 48326108--48326160 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
48326098 TTAAAATGAT
* *
48326108 ATTTTTAATTTTTTGAATTTTG
1 ATTTTTAATTTTATAAATTTTG
*
48326130 AATTTTTTATTTTATAAATTTTG
1 -ATTTTTAATTTTATAAATTTTG
48326153 ATTTTTAA
1 ATTTTTAA
48326161 AAATTATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (22 bp):
ATTTTTAATTTTATAAATTTTG
Found at i:48329127 original size:34 final size:35
Alignment explanation
Indices: 48329069--48329136 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
48329059 CAAACACCAA
48329069 AAAATATTTTCCAGTAAATCATTTTACAGAAAATT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAATT
*
48329104 AAAATATTTTCTC-G-AAATCATTTTACGGAAAAT
1 AAAATATTTTC-CAGTAAATCATTTTACAGAAAAT
48329137 ATTTTATTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 18 0.58
35 12 0.39
36 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAATT
Found at i:48332902 original size:21 final size:21
Alignment explanation
Indices: 48332873--48332953 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
48332863 TTTGACGCTG
*
48332873 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
**
48332894 CTCTACTTCCCTCGCTTTAGC
1 CTCTACTTCCCTCGCTGCAGC
* *
48332915 CTCTGCTTCCCTC-TTAGCAGC
1 CTCTACTTCCCTCGCT-GCAGC
* *
48332936 CTGTACTTCTCTCGCTGC
1 CTCTACTTCCCTCGCTGC
48332954 CGCATCTGCT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.02
21 45 0.96
22 1 0.02
ACGTcount: A:0.07, C:0.43, G:0.15, T:0.35
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:48332962 original size:42 final size:42
Alignment explanation
Indices: 48332874--48332963 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
48332864 TTGACGCTGC
** *
48332874 TCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTTTAGCC
1 TCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGCA
* * * *
48332916 TCTGCTTCCCTC-TTAGCAGCCTGTACTTCTCTCGCTGCCGCA
1 TCTGCTTCCCTCGCT-GCAGCCTCTACTTCCCTCGCTGCAGCA
48332958 TCTGCT
1 TCTGCT
48332964 CTAAGCTGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.08, C:0.42, G:0.16, T:0.34
Consensus pattern (42 bp):
TCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGCA
Found at i:48333015 original size:66 final size:66
Alignment explanation
Indices: 48332941--48333079 Score: 201
Period size: 66 Copynumber: 2.1 Consensus size: 66
48332931 GCAGCCTGTA
*
48332941 CTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 CTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATC-TTCGTTGAACAT
48333004 CAG
64 CAG
* * * *
48333007 CTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTCTTTGAACATCA
1 CTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTCGTTGAACATCA
48333072 G
66 G
48333073 CTTCTCT
1 CTTCTCT
48333080 TGATGTTGCC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.02
66 64 0.97
67 1 0.02
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTCGTTGAACATCA
G
Found at i:48333099 original size:66 final size:66
Alignment explanation
Indices: 48332941--48333104 Score: 179
Period size: 66 Copynumber: 2.5 Consensus size: 66
48332931 GCAGCCTGTA
* * * * * *
48332941 CTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTC
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACATC
48333005 AG
65 AG
* * *
48333007 CTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATA-TCTTCTTTGAACATC
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACT-TTCGTTGAACATC
48333071 AG
65 AG
* * * *
48333073 CTTCTCTTGATGTTGCCTCCGTTTTAAGTTGT
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
48333105 GTAATTTGCT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 2 0.02
66 83 0.98
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (66 bp):
CTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACATCA
G
Found at i:48338525 original size:9 final size:9
Alignment explanation
Indices: 48338489--48338932 Score: 171
Period size: 9 Copynumber: 51.8 Consensus size: 9
48338479 AATTGCACGG
48338489 GTAAGTTAT
1 GTAAGTTAT
*
48338498 GT-A-TTGT
1 GTAAGTTAT
*
48338505 GTAAGCTAT
1 GTAAGTTAT
*
48338514 GTAAGTTGT
1 GTAAGTTAT
48338523 GT-A-TTAT
1 GTAAGTTAT
*
48338530 GTAAATTAT
1 GTAAGTTAT
48338539 -T-A-TTAT
1 GTAAGTTAT
48338545 GCTTTAAGTTAT
1 G---TAAGTTAT
*
48338557 GTAAGTAAT
1 GTAAGTTAT
48338566 GT-A-TTAT
1 GTAAGTTAT
*
48338573 GTAAGTTGT
1 GTAAGTTAT
*
48338582 GT-A-TAAT
1 GTAAGTTAT
*
48338589 GTTAGTTAT
1 GTAAGTTAT
48338598 GTAAGTTAT
1 GTAAGTTAT
48338607 GT-A---A-
1 GTAAGTTAT
48338611 GTAAGTTAT
1 GTAAGTTAT
48338620 GTAAGTTAT
1 GTAAGTTAT
** *
48338629 CAAAGTAAT
1 GTAAGTTAT
*
48338638 GTATGTTAT
1 GTAAGTTAT
48338647 GTAAG-T-T
1 GTAAGTTAT
48338654 GTAAGTTAT
1 GTAAGTTAT
*
48338663 -TATGTATTAT
1 GTAAG--TTAT
*
48338673 GTAAGTTAA
1 GTAAGTTAT
* *
48338682 G-ATGGATTAC
1 GTA-AG-TTAT
48338692 GTAAGTTAT
1 GTAAGTTAT
48338701 GTAAGTTAAAT
1 GTAAGTT--AT
48338712 GT-A-TTAT
1 GTAAGTTAT
48338719 GTAAG-T-T
1 GTAAGTTAT
48338726 GTAAGTTAAAT
1 GTAAGTT--AT
48338737 GT-A-TTAT
1 GTAAGTTAT
48338744 GTAAG-T-T
1 GTAAGTTAT
48338751 GTAAGTTAGAT
1 GTAAGTT--AT
48338762 GT-A-TTAT
1 GTAAGTTAT
48338769 GTAAG-T-T
1 GTAAGTTAT
48338776 GTAAGTTAGAT
1 GTAAGTT--AT
48338787 GT-A-TTAT
1 GTAAGTTAT
48338794 GTAAG-T-T
1 GTAAGTTAT
48338801 GTAAGTTAT
1 GTAAGTTAT
*
48338810 -TATGTATTAT
1 GTAAG--TTAT
48338820 GTAAGTTAT
1 GTAAGTTAT
*
48338829 GCAAGTTAAAT
1 GTAAGTT--AT
48338840 GT-A-TTAT
1 GTAAGTTAT
48338847 G-AAGGTTAT
1 GTAA-GTTAT
*
48338856 GTAAGTTGT
1 GTAAGTTAT
**
48338865 GTAAGAGAT
1 GTAAGTTAT
*
48338874 TTAAGTTAT
1 GTAAGTTAT
* *
48338883 GTGAGTTTT
1 GTAAGTTAT
48338892 GT-A-TTAT
1 GTAAGTTAT
48338899 GTAAGTTAT
1 GTAAGTTAT
*
48338908 GTAGGTTAT
1 GTAAGTTAT
* *
48338917 TTAGGTTAT
1 GTAAGTTAT
48338926 GTAAGTT
1 GTAAGTT
48338933 TTGAGTTGTT
Statistics
Matches: 326, Mismatches: 47, Indels: 124
0.66 0.09 0.25
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 4 0.01
7 75 0.23
8 34 0.10
9 159 0.49
10 21 0.06
11 24 0.07
12 5 0.02
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:48338584 original size:25 final size:26
Alignment explanation
Indices: 48338549--48338932 Score: 270
Period size: 25 Copynumber: 15.2 Consensus size: 26
48338539 TATTATGCTT
48338549 TAAGTTATGTAAG-TAATGTATTATG
1 TAAGTTATGTAAGTTAATGTATTATG
*
48338574 TAAGTTGTGT-A--TAATGTTAGTTATG
1 TAAGTTATGTAAGTTAATG-TA-TTATG
48338599 TAAGTTATGTAAG-TAA-G--TTATG
1 TAAGTTATGTAAGTTAATGTATTATG
**
48338621 TAAGTTATCAAAG-TAATGTATGTTATG
1 TAAGTTATGTAAGTTAATGTA--TTATG
48338648 TAAG-T-TGTAAGTTATTATGTATTATG
1 TAAGTTATGTAAGTTA--ATGTATTATG
* *
48338674 TAAG---T-TAAG---ATGGATTACG
1 TAAGTTATGTAAGTTAATGTATTATG
48338693 TAAGTTATGTAAGTTAAATGTATTATG
1 TAAGTTATGTAAGTT-AATGTATTATG
48338720 TAAG-T-TGTAAGTTAAATGTATTATG
1 TAAGTTATGTAAGTT-AATGTATTATG
48338745 TAAG-T-TGTAAGTTAGATGTATTATG
1 TAAGTTATGTAAGTTA-ATGTATTATG
48338770 TAAG-T-TGTAAGTTAGATGTATTATG
1 TAAGTTATGTAAGTTA-ATGTATTATG
48338795 TAAG-T-TGTAAGTTATTATGTATTATG
1 TAAGTTATGTAAGTTA--ATGTATTATG
*
48338821 TAAGTTATGCAAGTTAAATGTATTATG
1 TAAGTTATGTAAGTT-AATGTATTATG
* ** *
48338848 -AAGGTTATGTAAGTT-GTGTAAGAGATT
1 TAA-GTTATGTAAGTTAATGT-A-TTATG
* *
48338875 TAAGTTATGTGAGTT-TTGTATTATG
1 TAAGTTATGTAAGTTAATGTATTATG
* *
48338900 TAAGTTATGTAGGTT-ATTTAGGTTATG
1 TAAGTTATGTAAGTTAATGTA--TTATG
48338927 TAAGTT
1 TAAGTT
48338933 TTGAGTTGTT
Statistics
Matches: 302, Mismatches: 26, Indels: 60
0.78 0.07 0.15
Matches are distributed among these distances:
19 12 0.04
22 20 0.07
23 10 0.03
24 8 0.03
25 131 0.43
26 33 0.11
27 73 0.24
28 14 0.05
29 1 0.00
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (26 bp):
TAAGTTATGTAAGTTAATGTATTATG
Found at i:48338614 original size:13 final size:13
Alignment explanation
Indices: 48338549--48338625 Score: 65
Period size: 13 Copynumber: 6.1 Consensus size: 13
48338539 TATTATGCTT
48338549 TAAGTTATGTAAG
1 TAAGTTATGTAAG
*
48338562 TAA-TGTAT-TATG
1 TAAGT-TATGTAAG
*
48338574 TAAGTTGTGT-A-
1 TAAGTTATGTAAG
*
48338585 TAATGTTA-GTTATG
1 TAA-GTTATG-TAAG
48338599 TAAGTTATGTAAG
1 TAAGTTATGTAAG
48338612 TAAGTTATGTAAG
1 TAAGTTATGTAAG
48338625 T
1 T
48338626 TATCAAAGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
11 4 0.08
12 13 0.26
13 29 0.58
14 4 0.08
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (13 bp):
TAAGTTATGTAAG
Found at i:48338675 original size:19 final size:19
Alignment explanation
Indices: 48338653--48338701 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
48338643 TTATGTAAGT
* *
48338653 TGTAAGTTATTATGTATTA
1 TGTAAGTTATGATGGATTA
*
48338672 TGTAAGTTAAGATGGATTA
1 TGTAAGTTATGATGGATTA
*
48338691 CGTAAGTTATG
1 TGTAAGTTATG
48338702 TAAGTTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (19 bp):
TGTAAGTTATGATGGATTA
Found at i:48338729 original size:128 final size:128
Alignment explanation
Indices: 48338593--48338869 Score: 306
Period size: 128 Copynumber: 2.1 Consensus size: 128
48338583 TATAATGTTA
48338593 GTTATGTAAGTTATGTAAGTAAGTTATGTAAGTTATCAAAG-TA-ATGTATGTTATGTAAGTTGT
1 GTTATGTAAGTTATGTAAGT-A-TTATGTAAGTTAT--AAGTTAGATGTA--TTATGTAAGTTGT
* *
48338656 AAGTTATTATGTATTATGTAAG-T-TAAG-ATGGATTACGTAAGTTATGTAAGTTAAATGTATTA
60 AAGTTA-GATGTATTATGTAAGTTGTAAGTATGGATTACGTAAGTTATGCAAGTTAAATGTATTA
48338718 TGTAA-
124 TG-AAG
*
48338723 G-T-TGTAAGTTA---AATGTATTATGTAAGTTGTAAGTTAGATGTATTATGTAAGTTGTAAGTT
1 GTTATGTAAGTTATGTAA-GTATTATGTAAGTTATAAGTTAGATGTATTATGTAAGTTGTAAGTT
* *
48338783 AGATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATGCAAGTTAAATGTATTATG
65 AGATGTATTATGTAAGTTGTAAG----TATGGATTACGTAAGTTATGCAAGTTAAATGTATTATG
48338848 AAG
126 AAG
*
48338851 GTTATGTAAGTTGTGTAAG
1 GTTATGTAAGTTATGTAAG
48338870 AGATTTAAGT
Statistics
Matches: 125, Mismatches: 6, Indels: 30
0.78 0.04 0.19
Matches are distributed among these distances:
121 14 0.11
122 23 0.18
123 6 0.05
124 17 0.14
125 3 0.02
126 2 0.02
127 2 0.02
128 44 0.35
129 2 0.02
130 9 0.07
132 1 0.01
133 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (128 bp):
GTTATGTAAGTTATGTAAGTATTATGTAAGTTATAAGTTAGATGTATTATGTAAGTTGTAAGTTA
GATGTATTATGTAAGTTGTAAGTATGGATTACGTAAGTTATGCAAGTTAAATGTATTATGAAG
Found at i:48338812 original size:19 final size:19
Alignment explanation
Indices: 48338788--48338828 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
48338778 AAGTTAGATG
48338788 TATTATGTAAGT-TGTAAGT
1 TATTATGT-AGTATGTAAGT
*
48338807 TATTATGTATTATGTAAGT
1 TATTATGTAGTATGTAAGT
48338826 TAT
1 TAT
48338829 GCAAGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
TATTATGTAGTATGTAAGT
Found at i:48338899 original size:43 final size:43
Alignment explanation
Indices: 48338852--48338935 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
48338842 ATTATGAAGG
* *
48338852 TTATGTAAGTTGTGTAAGAGATTTAAGTTATGTGAGTTTTGTA
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
* ** *
48338895 TTATGTAAGTTATGTAGGTTATTTAGGTTATGTAAGTTTTG
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTG
48338936 AGTTGTTCAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
Found at i:48339082 original size:12 final size:11
Alignment explanation
Indices: 48339055--48339135 Score: 50
Period size: 12 Copynumber: 7.5 Consensus size: 11
48339045 TGTTAAGTAC
48339055 AATTTAATAA-
1 AATTTAATAAT
48339065 AA--TAATATAT
1 AATTTAATA-AT
48339075 AATTTAATAA-
1 AATTTAATAAT
*
48339085 CATTACTAAT-AT
1 AATT--TAATAAT
48339097 AATTATTAATAAT
1 AA-T-TTAATAAT
48339110 -ATTTAATAAT
1 AATTTAATAAT
48339120 AATTTTAAT-AT
1 AA-TTTAATAAT
48339131 AATTT
1 AATTT
48339136 TATTATTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 18 0.32
11 8 0.14
12 21 0.37
13 3 0.05
14 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:48341510 original size:40 final size:42
Alignment explanation
Indices: 48341461--48341542 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
48341451 TTGTCGATTC
*
48341461 CAACTTTTACGGCG-CTT-ACAATCAAACGCCACTAAT-TTTA
1 CAACATTTACGGCGTCTTGACAAT-AAACGCCACTAATATTTA
* *
48341501 CAACATTTACGGCGTTTTGAGAATAAACGCCACTAATATTTA
1 CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
48341543 ATTCGTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 13 0.36
41 15 0.42
42 8 0.22
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (42 bp):
CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
Found at i:48342183 original size:7 final size:7
Alignment explanation
Indices: 48342146--48342309 Score: 116
Period size: 7 Copynumber: 22.0 Consensus size: 7
48342136 AATTAATAAC
48342146 CCCTAAA
1 CCCTAAA
48342153 TCCCTTAAA
1 -CCC-TAAA
48342162 CCCTTAAA
1 CCC-TAAA
* *
48342170 GCATAAA
1 CCCTAAA
48342177 CCCTAAA
1 CCCTAAA
48342184 CCCTAAA
1 CCCTAAA
48342191 CCCTAAA
1 CCCTAAA
48342198 CCCTAAA
1 CCCTAAA
48342205 CCCTAAA
1 CCCTAAA
*
48342212 CCCTAATT
1 CCCTAA-A
48342220 CCC-AAA
1 CCCTAAA
*
48342226 TTCCT-AA
1 -CCCTAAA
*
48342233 CCCATAAC
1 CCC-TAAA
48342241 CCCTAAA
1 CCCTAAA
48342248 TCCCTTAAA
1 -CCC-TAAA
48342257 CCCTTAAA
1 CCC-TAAA
* *
48342265 GCATAAA
1 CCCTAAA
48342272 CCCTAAA
1 CCCTAAA
*
48342279 CTCCTCTAAC
1 --CC-CTAAA
48342289 CCCTAAA
1 CCCTAAA
* *
48342296 CCATAAC
1 CCCTAAA
48342303 CCCTAAA
1 CCCTAAA
48342310 AAATTTTATT
Statistics
Matches: 125, Mismatches: 20, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
6 2 0.02
7 76 0.61
8 33 0.26
9 10 0.08
10 4 0.03
ACGTcount: A:0.40, C:0.39, G:0.01, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:48342606 original size:22 final size:22
Alignment explanation
Indices: 48342581--48342634 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
48342571 CTTACCGTTC
*
48342581 AAACCCTAAACCAAAAATCCCT
1 AAACCCTAAACCAAAAACCCCT
* **
48342603 AAACCTTAAACCCTAAACCCCT
1 AAACCCTAAACCAAAAACCCCT
48342625 AAACCCTAAA
1 AAACCCTAAA
48342635 TCTTAACCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (22 bp):
AAACCCTAAACCAAAAACCCCT
Found at i:48342626 original size:8 final size:7
Alignment explanation
Indices: 48342581--48342634 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
48342571 CTTACCGTTC
48342581 AAACCCT
1 AAACCCT
**
48342588 AAACCAA
1 AAACCCT
48342595 AAATCCCT
1 AAA-CCCT
*
48342603 AAACCTT
1 AAACCCT
48342610 AAACCCT
1 AAACCCT
48342617 AAACCCCT
1 AAA-CCCT
48342625 AAACCCT
1 AAACCCT
48342632 AAA
1 AAA
48342635 TCTTAACCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 27 0.69
8 12 0.31
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:48342629 original size:15 final size:14
Alignment explanation
Indices: 48342581--48342634 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
48342571 CTTACCGTTC
*
48342581 AAACCCTAAACCAA
1 AAACCCTAAACCAT
*
48342595 AAATCCCTAAACCTT
1 AAA-CCCTAAACCAT
*
48342610 AAACCCTAAACCCCT
1 AAACCCTAAA-CCAT
48342625 AAACCCTAAA
1 AAACCCTAAA
48342635 TCTTAACCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.29
15 25 0.71
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:48343316 original size:114 final size:113
Alignment explanation
Indices: 48342920--48343473 Score: 440
Period size: 114 Copynumber: 4.9 Consensus size: 113
48342910 AATCCCTGAT
* * * * *
48342920 CATTAGCGGCGCTTT-TCTAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGA-CGTT
1 CATTAGCGGCGCTTTAT-GAAAAACGCCGCTAAATCCCT-GAAAGCTCGGGAAACGAC-ATCGTT
* * * * * *
48342983 GCGTTTAGCTTTTTTTGCGGCGC-TTTCTAAAAAACGCCACTAAAGA-CTGAA-
63 GCGCTTAG-GTTTTTAGCGGCGCTTTTC-CAGAAACGCCGCTAAAGACCT-AAG
* * * * * * *
48343034 CATTAGCGGCGCTTTA-CAAAAACGCCGCTAAAATCCCCGAAAGC-CAGAAAACGGCGTCGTTGG
1 CATTAGCGGCGCTTTATGAAAAACGCCGCT-AAATCCCTGAAAGCTCGGGAAACGACATCGTTGC
* ** * * *
48343097 GCTTAGGTTTTTTGCGGCGCTTTAACAAAAACGCCGCTAAAGACTTCAG
65 GCTTAGGTTTTTAGCGGCGCTTTTCCAGAAACGCCGCTAAAGACCTAAG
* * * *
48343146 CATTAGTGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACATCGTTGC
1 CATTAGCGGCGCTTTATG-AAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGC
* *
48343211 GC-TA-GTTTTAAGTAGCGGCGCTTTTCCAGAAACGCTGCTAAAGACCTAAC
65 GCTTAGGTTTT---TAGCGGCGCTTTTCCAGAAACGCCGCTAAAGACCTAAG
* *
48343261 CATTAGCGGCGCTTTAT-AGAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGG
1 CATTAGCGGCGCTTTATGA-AAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGC
* * *
48343325 GCTTAGATATTTTTA-CGGCGC-TTTCATAGAAACGCCGCTAAAG-CCTTGAG
65 GCTTAG--GTTTTTAGCGGCGCTTTTC-CAGAAACGCCGCTAAAGACC-TAAG
* * * * *
48343375 AATTAGCGGCGC-TTACTGAAAAACGCCGCTAAATCACC-GAATGCTGGGGAAACGGCGTCGTTG
1 CATTAGCGGCGCTTTA-TGAAAAACGCCGCTAAATC-CCTGAAAGCTCGGGAAACGACATCGTTG
* *
48343438 CGC-TAGGTTTTTTGCGGCGC-TTTCTCAAAAACGCCG
64 CGCTTAGGTTTTTAGCGGCGCTTTTC-CAGAAACGCCG
48343474 GGAATGATTA
Statistics
Matches: 363, Mismatches: 54, Indels: 48
0.78 0.12 0.10
Matches are distributed among these distances:
111 35 0.10
112 61 0.17
113 45 0.12
114 166 0.46
115 52 0.14
118 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (113 bp):
CATTAGCGGCGCTTTATGAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCG
CTTAGGTTTTTAGCGGCGCTTTTCCAGAAACGCCGCTAAAGACCTAAG
Found at i:48343438 original size:228 final size:227
Alignment explanation
Indices: 48342921--48343448 Score: 563
Period size: 228 Copynumber: 2.3 Consensus size: 227
48342911 ATCCCTGATC
* * * * * *
48342921 ATTAGCGGCGCTT-TTCTAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGA-CGTTG
1 ATTAGCGGCGCTTACTGTAAAAACGCCGCTAAATCCCT-GAAAGCTCGGGAAACGAC-ATCGTTG
* * * * * * **
48342984 CGTTTAGCTTTT--TTTGCGGCGC-TTTCTAAAAAACGCCACTAAAGACTGAACATTAGCGGCGC
64 CG-CTAGGTTTTAAGTAGCGGCGCTTTTC-CAGAAACGCTGCTAAAGACTGAACATTAGCGGCGC
* * * *
48343046 TTTACAAAAACGCCGCTAAAATCCCCGAAAGCCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
127 TTTACAAAAACGCCGCTAAAATCCCCGAAAGCCAGAAAACGACATCGTTGGGCTTAGATTTTTTA
*
48343111 CGGCGCTTTAACAAAAACGCCGCTAAAGACTTCAGC
192 CGGCGCTTTAACAAAAACGCCGCTAAAGACTTCAGA
* * * *
48343147 ATTAGTGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACATCGTTGCG
1 ATTAGCGGCGCTTACTGTAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCG
48343212 CTA-GTTTTAAGTAGCGGCGCTTTTCCAGAAACGCTGCTAAAGACCT-AACCATTAGCGGCGCTT
66 CTAGGTTTTAAGTAGCGGCGCTTTTCCAGAAACGCTGCTAAAGA-CTGAA-CATTAGCGGCGCTT
* * * * *
48343275 TATAGAAAGCGCCGCT-AAATCCCTGAAAGCTCGGGAAACGACATCGTTGGGCTTAGATATTTTT
129 TACA-AAAACGCCGCTAAAATCCCCGAAAGC-CAGAAAACGACATCGTTGGGCTTAGAT-TTTTT
* * * * *
48343339 ACGGCGCTTTCATAGAAACGCCGCTAAAGCCTTGAGA
191 ACGGCGCTTTAACAAAAACGCCGCTAAAGACTTCAGA
* * * *
48343376 ATTAGCGGCGCTTACTG-AAAAACGCCGCTAAATCACC-GAATGCTGGGGAAACGGCGTCGTTGC
1 ATTAGCGGCGCTTACTGTAAAAACGCCGCTAAATC-CCTGAAAGCTCGGGAAACGACATCGTTGC
48343439 GCTAGGTTTT
65 GCTAGGTTTT
48343449 TTGCGGCGCT
Statistics
Matches: 250, Mismatches: 40, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
224 4 0.02
225 3 0.01
226 56 0.22
227 57 0.23
228 73 0.29
229 57 0.23
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (227 bp):
ATTAGCGGCGCTTACTGTAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCG
CTAGGTTTTAAGTAGCGGCGCTTTTCCAGAAACGCTGCTAAAGACTGAACATTAGCGGCGCTTTA
CAAAAACGCCGCTAAAATCCCCGAAAGCCAGAAAACGACATCGTTGGGCTTAGATTTTTTACGGC
GCTTTAACAAAAACGCCGCTAAAGACTTCAGA
Found at i:48356116 original size:27 final size:26
Alignment explanation
Indices: 48356076--48356136 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
48356066 TAGGTTAATT
* * *
48356076 TTAAAAT-AAGTAATATGTAAAATAAC
1 TTAAAATAAAATAATATAT-AAAGAAC
*
48356102 TTTAAATAAAATAATATATAAAGAAC
1 TTAAAATAAAATAATATATAAAGAAC
48356128 TTAAAATAA
1 TTAAAATAA
48356137 TTAGCCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (26 bp):
TTAAAATAAAATAATATATAAAGAAC
Found at i:48356184 original size:21 final size:21
Alignment explanation
Indices: 48356155--48356194 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48356145 ATAAGTTAGG
48356155 TTAAGATAATAAATAAAAGGT
1 TTAAGATAATAAATAAAAGGT
* **
48356176 TTAATATAATCTATAAAAG
1 TTAAGATAATAAATAAAAG
48356195 AGAAAATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAAGATAATAAATAAAAGGT
Found at i:48358294 original size:132 final size:132
Alignment explanation
Indices: 48358142--48358411 Score: 371
Period size: 132 Copynumber: 2.0 Consensus size: 132
48358132 AACCTCGAGC
* * *
48358142 AGATAAAATTACAGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATTCACCATCTTTG
1 AGATAGAATTACAGGCTTCAATGTACTCCACTGTAATCACAAGGAGGTAAAATCCACCATCTTTG
* * * * * * *
48358207 ATTTGTTCGACTATTACTTAGGGAGATGAGATCTAAAATCTT-CAATCTATTCCGCTGCTGCCCA
66 ATTTGCTCCACTATTACGTAAGGAGATGAGATCTAAAAT-TTCCAACCTATTCCACTGCTGACCA
48358271 GGG
130 GGG
* * * *
48358274 AGATAGAATTACTGGTTTCAATGTATTCCACTGTAATCACAAGGAGGTAAAATCCGCCATCTTTG
1 AGATAGAATTACAGGCTTCAATGTACTCCACTGTAATCACAAGGAGGTAAAATCCACCATCTTTG
* * *
48358339 ATTTGCTCCACTATTGCGTAAGGAGATGAGATCTGATATTTCCAACCTATTCCACTGCTGACCAG
66 ATTTGCTCCACTATTACGTAAGGAGATGAGATCTAAAATTTCCAACCTATTCCACTGCTGACCAG
48358404 GG
131 GG
48358406 AGATAG
1 AGATAG
48358412 GACTTGTGGG
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
131 2 0.02
132 118 0.98
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (132 bp):
AGATAGAATTACAGGCTTCAATGTACTCCACTGTAATCACAAGGAGGTAAAATCCACCATCTTTG
ATTTGCTCCACTATTACGTAAGGAGATGAGATCTAAAATTTCCAACCTATTCCACTGCTGACCAG
GG
Found at i:48358706 original size:129 final size:128
Alignment explanation
Indices: 48358367--48359151 Score: 1108
Period size: 129 Copynumber: 6.1 Consensus size: 128
48358357 TAAGGAGATG
*
48358367 AGATCTG-ATATTTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGGTTAAATCTG
1 AGATCTGTA-ATTTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTG
*
48358431 CTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGTTTAGGGAGACA
65 CTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACA
* ** *
48358495 AGATCTGTAATTTTCAACCTATTCCACTGCTGACCAATGAGATAGGACTTGTGGCTTAAATCTAC
1 AGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC
* ** * * *
48358560 TTCCTTACTCTTGAAGATATGATTCAACGTCGTCGATCTGCTCCACTACTGCTTATGGAGACA
66 TTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACA
* * * *
48358623 AGATCTCTAATTTCTCAACCTATTCCACTGCTGACCAGGAATATAGGACTTGTGGCTTAAATTTG
1 AGATCTGTAATTTC-CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTG
* *
48358688 CTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTACTGCTT-GTGGAGATA
65 CTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAG-GGAGACA
* *
48358752 AGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGTCTTGTGGCTTAAAT-TG
1 AGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTG
* * * * *
48358816 TTTTCTTACTCTTGAAGATAAGATTTGTCGTCTTCAATCTGCTCCGCTACTGCTTAGGGAGACA
65 CTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACA
* * * *
48358880 AGATCTGCAATTTCCAACCTATTCTACTACTGACCAGAGAGATAGGACTTGTGGCTTAAATCTGC
1 AGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC
* ** * *
48358945 TTCCTTACACTTGAAGATAAGATTCGCCGTCTTTAATCTACTCCGCTAGTGCTTAGGGAGACA
66 TTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACA
* * * *
48359008 AGATCTGTAATTTCCCAACTTATTCCACTACTGGCCAGGGAGATAGGACTTTTGGCTTAAATCTG
1 AGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTG
* * * * *
48359073 CTTCCTTACACTTGCAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGGATACA
65 CTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACA
*
48359137 AGATCTGTAAGTTCC
1 AGATCTGTAATTTCC
48359152 CTGATCTGTT
Statistics
Matches: 586, Mismatches: 64, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
127 43 0.07
128 269 0.46
129 273 0.47
130 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (128 bp):
AGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC
TTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACA
Found at i:48359077 original size:385 final size:386
Alignment explanation
Indices: 48358333--48359152 Score: 1137
Period size: 385 Copynumber: 2.1 Consensus size: 386
48358323 AAATCCGCCA
* * * * * * *
48358333 TCTTTGATTTGCTCCACTATTGCGTAAGGAGATGAGATCTG-ATATTT-CCAACCTATTCCACTG
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTA-ATTTCCCAACCTATTCCACTG
*
48358396 CTGACCAGGGAGATAGGACTTGTGGGTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCG
65 CTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCG
* * * * *
48358461 TCTTCGATCTGCTCCGCTACTGTTTAGGGAGACAAGATCTGTAATTTTCAACCTATTCCACTGCT
130 TCTTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTACT
* *
48358526 GACCAATGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACTCTTGAAGATATGATTCAACGTC
195 GACCAATGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCAACGTC
* * * * *
48358591 GTCGATCTGCTCCACTACTGCTTATGGAGACAAGATCTCTAATTTCTCAACCTATTCCACTGCTG
260 GTCAATCTACTCCACTACTGCTTAGGGAGACAAGATCTCTAATTTCCCAACCTATTCCACTACTG
* * * **
48358656 ACCAGGAATATAGGACTTGTGGCTTAAATTTGCTTCCTTACTCTTGAAGATAAGATTTGCCG
325 ACCAGGAAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCG
48358718 TCTTCGATCTGCTCCGCTACTGCTT-GTGGAGATAAGATCTGTAATTTCCCAACCTATTCCACTG
1 TCTTCGATCTGCTCCGCTACTGCTTAG-GGAGATAAGATCTGTAATTTCCCAACCTATTCCACTG
* * * * * *
48358782 CTGACCAGGGATATAGGTCTTGTGGCTTAAAT-TGTTTTCTTACTCTTGAAGATAAGATTTGTCG
65 CTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCG
*
48358846 TCTTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCTACTACT
130 TCTTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTACT
* **
48358911 GACCAGA-GAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGT
195 GACCA-ATGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCAACGT
* * * * * *
48358975 CTTTAATCTACTCCGCTAGTGCTTAGGGAGACAAGATCTGTAATTTCCCAACTTATTCCACTACT
259 CGTCAATCTACTCCACTACTGCTTAGGGAGACAAGATCTCTAATTTCCCAACCTATTCCACTACT
* * * *
48359040 GGCCAGGGAGATAGGACTTTTGGCTTAAATCTGCTTCCTTACACTTGCAGATAAGATTCACCG
324 GACCAGGAAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCG
* * * *
48359103 TCTTCGATCTGCTCCGCTATTGCTTAGGGATACAAGATCTGTAAGTTCCC
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCCC
48359153 TGATCTGTTC
Statistics
Matches: 381, Mismatches: 49, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
385 333 0.87
386 48 0.13
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (386 bp):
TCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCCCAACCTATTCCACTGC
TGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGT
CTTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTACTG
ACCAATGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCAACGTCG
TCAATCTACTCCACTACTGCTTAGGGAGACAAGATCTCTAATTTCCCAACCTATTCCACTACTGA
CCAGGAAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCG
Found at i:48360366 original size:8 final size:7
Alignment explanation
Indices: 48360355--48360407 Score: 69
Period size: 7 Copynumber: 8.0 Consensus size: 7
48360345 CTATTTTTAC
48360355 TTTTTCA
1 TTTTTCA
48360362 TTTTTTCA
1 -TTTTTCA
48360370 TTTTTCA
1 TTTTTCA
48360377 TTTTTCA
1 TTTTTCA
48360384 -TTTTCA
1 TTTTTCA
48360390 TTTTT--
1 TTTTTCA
48360395 TTTTT-A
1 TTTTTCA
48360401 TTTTTCA
1 TTTTTCA
48360408 CATTTTTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.12
6 11 0.26
7 19 0.45
8 7 0.17
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:48365872 original size:26 final size:25
Alignment explanation
Indices: 48365838--48365898 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
48365828 TAGGTTAATT
* * *
48365838 TTAAAATAAGTAATATGTAAAATAAC
1 TTAAAATAAATAATATAT-AAAGAAC
*
48365864 TTTAAATAAAATAATATATAAAGAAC
1 TTAAAAT-AAATAATATATAAAGAAC
48365890 TTAAAATAA
1 TTAAAATAA
48365899 TTAGCCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.07
26 18 0.62
27 9 0.31
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (25 bp):
TTAAAATAAATAATATATAAAGAAC
Found at i:48365946 original size:21 final size:21
Alignment explanation
Indices: 48365917--48365956 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48365907 ATAAGTTAGG
48365917 TTAAGATAATAAATAAAAGGT
1 TTAAGATAATAAATAAAAGGT
* **
48365938 TTAATATAATCTATAAAAG
1 TTAAGATAATAAATAAAAG
48365957 AGAAAATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAAGATAATAAATAAAAGGT
Found at i:48367709 original size:31 final size:29
Alignment explanation
Indices: 48367659--48367725 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
48367649 TATGAATTTG
*
48367659 GAATTTAGTCTGTATTTTTTTA-TTTTTAA
1 GAATTTAGTCTGTA-TTTTTTAGATTTTAA
*
48367688 GAATTTAGTTTCTTTATTTTTTAGATTTTAA
1 GAATTTAG--TCTGTATTTTTTAGATTTTAA
48367719 -AATTTAG
1 GAATTTAG
48367726 GTTCAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 8 0.24
30 14 0.42
31 11 0.33
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (29 bp):
GAATTTAGTCTGTATTTTTTAGATTTTAA
Found at i:48369444 original size:22 final size:22
Alignment explanation
Indices: 48369417--48369458 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48369407 ATAATTCAAA
48369417 ATATACATACATTTTCTATAAT
1 ATATACATACATTTTCTATAAT
* *
48369439 ATATACGTACATTTTTTATA
1 ATATACATACATTTTCTATA
48369459 TTTTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATACATACATTTTCTATAAT
Found at i:48375282 original size:44 final size:43
Alignment explanation
Indices: 48375216--48375552 Score: 377
Period size: 44 Copynumber: 8.1 Consensus size: 43
48375206 GCGAAGCAGA
* *
48375216 TTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGAAATAGG
1 TTGAAGATTGT-AATCCTATCTCCCTGGTCAGCAGTGGAATAGG
* *
48375260 TTAAAGATTGTAAGTCCTATCTCCCTGGTCAGCAAT-GAA-A--
1 TTGAAGATTGTAA-TCCTATCTCCCTGGTCAGCAGTGGAATAGG
* * *
48375300 -T--AG-GTG-AATCCTATCTCCCTGGTCAACGGTGGAATAGG
1 TTGAAGATTGTAATCCTATCTCCCTGGTCAGCAGTGGAATAGG
* *
48375338 TTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGGAATTGG
1 TTGAAGATTGT-AATCCTATCTCCCTGGTCAGCAGTGGAATAGG
48375382 TTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG-A-A--
1 TTGAAGATTGTAA-TCCTATCTCCCTGGTCAGCAGTGGAATAGG
* *
48375422 -T--AGA-TG-AATCATATCTCCCTGGTCAGCAGTGGAATAAG
1 TTGAAGATTGTAATCCTATCTCCCTGGTCAGCAGTGGAATAGG
*
48375460 TTGAAGATTGTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGG
1 TTGAAGATTGT-AATCCTATCTCCCTGGTCAGCAGTGGAATAGG
*
48375504 TTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAGTAGG
1 TTGAAGATTGT-AATCCTATCTCCCTGGTCAGCAGTGGAATAGG
48375548 TTGAA
1 TTGAA
48375553 AATTACAGAT
Statistics
Matches: 250, Mismatches: 21, Indels: 44
0.79 0.07 0.14
Matches are distributed among these distances:
34 42 0.17
35 8 0.03
36 6 0.02
37 5 0.02
39 4 0.02
41 5 0.02
42 5 0.02
43 5 0.02
44 170 0.68
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TTGAAGATTGTAATCCTATCTCCCTGGTCAGCAGTGGAATAGG
Found at i:48375320 original size:78 final size:78
Alignment explanation
Indices: 48375225--48375371 Score: 240
Period size: 78 Copynumber: 1.9 Consensus size: 78
48375215 ATTGAAGATT
* *
48375225 GTGAGTCCTATCTCCCTGGTCAGCAGTGAAATAGGTTAAAGATTGTAAGTCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAACAGTGAAATAGGTTAAAGATTGTAAGTCCTATCTCCCTGGTC
48375290 AGCAATGAAATAG
66 AGCAATGAAATAG
* * * *
48375303 GTGAATCCTATCTCCCTGGTCAACGGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAACAGTGAAATAGGTTAAAGATTGTAAGTCCTATCTCCCTGGTC
48375368 AGCA
66 AGCA
48375372 GTGGAATTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (78 bp):
GTGAATCCTATCTCCCTGGTCAACAGTGAAATAGGTTAAAGATTGTAAGTCCTATCTCCCTGGTC
AGCAATGAAATAG
Found at i:48375438 original size:78 final size:78
Alignment explanation
Indices: 48375355--48375502 Score: 253
Period size: 78 Copynumber: 1.9 Consensus size: 78
48375345 TTGTGAGTCC
**
48375355 TATCTCCCTGGTCAGCAGTGGAATTGGTTGAAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTG
1 TATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGTGAA-TCCTATCTCCCTGGTCAGCAGTG
48375419 GAATAGATGAATCA
65 GAATAGATGAATCA
*
48375433 TATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGTAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGG
48375498 AATAG
66 AATAG
48375503 GTTGAAGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 64 0.97
79 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (78 bp):
TATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGG
AATAGATGAATCA
Found at i:48375538 original size:122 final size:122
Alignment explanation
Indices: 48375216--48375542 Score: 530
Period size: 122 Copynumber: 2.7 Consensus size: 122
48375206 GCGAAGCAGA
* *
48375216 TTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGAAATAGGTTAAAGATTGTAAGTCCTATC
1 TTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATC
* * * * * *
48375281 TCCCTGGTCAGCAATGAAATAGGTGAATCCTATCTCCCTGGTCAACGGTGGAATAGG
66 TCCCTGGTCAGCAGTGGAATAGATGAATCATATCTCCCTGGTCAACAGTGGAATAAG
*
48375338 TTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGGAATTGGTTGAAGATTGTAAGTCCTATC
1 TTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATC
*
48375403 TCCCTGGTCAGCAGTGGAATAGATGAATCATATCTCCCTGGTCAGCAGTGGAATAAG
66 TCCCTGGTCAGCAGTGGAATAGATGAATCATATCTCCCTGGTCAACAGTGGAATAAG
* *
48375460 TTGAAGATTGTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAA-TCCTAT
1 TTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTAT
48375524 CTCCCTGGTCAGCAGTGGA
65 CTCCCTGGTCAGCAGTGGA
48375543 GTAGGTTGAA
Statistics
Matches: 191, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
122 189 0.99
123 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (122 bp):
TTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATC
TCCCTGGTCAGCAGTGGAATAGATGAATCATATCTCCCTGGTCAACAGTGGAATAAG
Found at i:48375569 original size:44 final size:44
Alignment explanation
Indices: 48375433--48375745 Score: 179
Period size: 44 Copynumber: 7.2 Consensus size: 44
48375423 AGATGAATCA
* * ** *
48375433 TATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATT-GTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAGATTACAG-ATCT
* * ** *
48375477 TATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT-GTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAGATTACAG-ATCT
*
48375521 TATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAGATTACAGATCT
* * * * *
48375565 TATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGGTA-A-ATCT
1 TATCTCCCT-GGTCAGCAGTGGAGTAGGTTGAAGAT--TACAGATCT
* * * * ** *
48375609 TATCTTCCCAAGGT-AGTAG-GGAAGTAGATTTAAG-CCACTAG-CCT
1 TATC-TCCC-TGGTCAGCAGTGG-AGTAGGTTGAAGATTAC-AGATCT
* *
48375653 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTATAGACCT
1 TATCTCCCTG-GTCAGCAGTGGAGTAGGTTGAAGATTACAGATCT
* *
48375697 TATATCCCTAAG-CAGCAGTGGAGTA-G--GAA-ATTACAGATCT
1 TATCTCCCT-GGTCAGCAGTGGAGTAGGTTGAAGATTACAGATCT
48375737 TATCTCCCT
1 TATCTCCCT
48375746 AAGCAGTAGT
Statistics
Matches: 218, Mismatches: 34, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
40 17 0.08
41 3 0.01
42 2 0.01
43 22 0.10
44 150 0.69
45 22 0.10
46 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAGATTACAGATCT
Found at i:48375581 original size:88 final size:88
Alignment explanation
Indices: 48375426--48375759 Score: 244
Period size: 88 Copynumber: 3.8 Consensus size: 88
48375416 GTGGAATAGA
* * * * ** * *
48375426 TGAATCATATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATT-GTGAATCCTATCTCCCT-GGT
1 TGAATCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAG-ATCTTATCTCCCTAAG-
*
48375489 CAGTAGTGGAATAGGTTGAAGATTG
64 CAGTAGTGGAGTAGGTTGAAGATTG
48375514 TGAATCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
1 TGAATCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
* * * *
48375579 GTAGTGGAGCAGATCGAAGATGG
66 GTAGTGGAGTAGGTTGAAGATTG
* * * * * * *** * *
48375602 TAAATCTTATCTTCCCAAGGT-AGTAG-GGAAGTAGATT-TAAGCCACTAG-CCTTATCTCCCTG
1 TGAATCCTATC-TCCC-TGGTCAGCAGTGG-AGTAGGTTGAAAATTAC-AGATCTTATCTCCCTA
* *
48375663 AGCAGCAGTGGAGTAGGTTGAAGATTA
62 AGCAGTAGTGGAGTAGGTTGAAGATTG
* *
48375690 T-AGA-CCTTATATCCCTAAG-CAGCAGTGGAGTA-G--G-AAATTACAGATCTTATCTCCCTAA
1 TGA-ATCC-TATCTCCCT-GGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAA
48375748 GCAGTAGTGGAG
63 GCAGTAGTGGAG
48375760 CAGATCAAAG
Statistics
Matches: 191, Mismatches: 42, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
83 2 0.01
84 27 0.14
87 15 0.08
88 125 0.65
89 19 0.10
90 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
TGAATCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
GTAGTGGAGTAGGTTGAAGATTG
Found at i:48375782 original size:172 final size:175
Alignment explanation
Indices: 48375477--48375849 Score: 526
Period size: 172 Copynumber: 2.1 Consensus size: 175
48375467 TTGTGAATCC
* * * * *
48375477 TATCTCCCTG-GTCAGTAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTG
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTATGAATCCTATATCCCTAGTCAGCAGTG
* ** *
48375541 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAAA
65 GAGTAGG-TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGCAAA
* *
48375606 TCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCT
129 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTAAAGCCACTAGCCT
48375653 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTAT-AGA-CCTTATATCCCTAAG-CAGCAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATGA-ATCC-TATATCCCT-AGTCAGCAG
*
48375715 TGGAGTA-G-G-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGCGA
63 TGGAGTAGGTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGCAA
*
48375777 ATCTTATCTTCCTAAGGTAGTAGGGAAGCAGATTAAAGCCACTAGCCT
128 ATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTAAAGCCACTAGCCT
*
48375825 TATCTCCCTGAGCAACAGTGGAGTA
1 TATCTCCCTGAGCAGCAGTGGAGTA
48375850 TTTTTTATAT
Statistics
Matches: 179, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
172 117 0.65
173 1 0.01
175 4 0.02
176 55 0.31
177 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (175 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATGAATCCTATATCCCTAGTCAGCAGTGG
AGTAGGTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGCAAATC
TTATCTTCCCAAGGTAGTAGGGAAGCAGATTAAAGCCACTAGCCT
Found at i:48375899 original size:20 final size:20
Alignment explanation
Indices: 48375848--48375900 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
48375838 AACAGTGGAG
*
48375848 TATTTTTTATATTTTTAAAT
1 TATTTTATATATTTTTAAAT
* * ***
48375868 TATTATAAATATTTTTTTGT
1 TATTTTATATATTTTTAAAT
48375888 TATTTTATATATT
1 TATTTTATATATT
48375901 CCATTGTTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTTATATATTTTTAAAT
Found at i:48376072 original size:12 final size:12
Alignment explanation
Indices: 48376053--48376086 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
48376043 CATAATTTTC
48376053 ACATACATATAT
1 ACATACATATAT
*
48376065 ATATACATATAT
1 ACATACATATAT
48376077 ACATACATAT
1 ACATACATAT
48376087 TTTAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (12 bp):
ACATACATATAT
Found at i:48376239 original size:23 final size:22
Alignment explanation
Indices: 48376198--48376242 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
48376188 TACTCATATA
*
48376198 TATTTTTATTATATATTGTAAT
1 TATTATTATTATATATTGTAAT
*
48376220 TATTATTATTTATATCTTGTAAT
1 TATTATTA-TTATATATTGTAAT
48376243 CTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTATTATTATATATTGTAAT
Found at i:48378026 original size:16 final size:16
Alignment explanation
Indices: 48378005--48378035 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48377995 CATGTTGGAG
48378005 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
48378021 CATATATATTTGAAA
1 CATATAAATTTGAAA
48378036 ACTTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:48378209 original size:26 final size:24
Alignment explanation
Indices: 48378180--48378229 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
48378170 TTTTTTTTAA
*
48378180 AAATTATTATAATTCTTTAAAAATAT
1 AAATT-TTAGAATT-TTTAAAAATAT
*
48378206 AAATTTTAGAATTTTTATAAATAT
1 AAATTTTAGAATTTTTAAAAATAT
48378230 TTTGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 7 0.32
26 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
AAATTTTAGAATTTTTAAAAATAT
Found at i:48378238 original size:19 final size:19
Alignment explanation
Indices: 48378203--48378258 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
48378193 TCTTTAAAAA
*
48378203 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
48378221 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
48378239 TAAAAATTATTTTG-ATTTT
1 TATAAA-TATTTTGAATTTT
48378258 T
1 T
48378259 TTTTTTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:48378240 original size:18 final size:18
Alignment explanation
Indices: 48378203--48378257 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
48378193 TCTTTAAAAA
*
48378203 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAA-TTT
48378221 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
*
48378239 TAAAAATTATTTTG-ATTT
1 TATAAA-TATTTTGAATTT
48378257 T
1 T
48378258 TTTTTTTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 20 0.61
19 13 0.39
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:48384911 original size:27 final size:27
Alignment explanation
Indices: 48384881--48385046 Score: 161
Period size: 27 Copynumber: 6.1 Consensus size: 27
48384871 CTAATATTTA
*
48384881 TAAAATGACCGTAATACCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
** * **
48384908 TAAAATGACCAAAAAACCTTTATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* * *
48384935 TAAAATGATCGTAATGCCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
** *
48384962 TAAAATGATTGTAATACCCCCATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* * *
48384989 TTAAATGACCGAAATACCCCTATAAGG
1 TAAAATGACCGTAATACCCCTATAGGG
* ** *
48385016 TAAAATGACCATAATGTCCCTAGAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
48385043 TAAA
1 TAAA
48385047 TAACTATTTT
Statistics
Matches: 108, Mismatches: 31, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTATAGGG
Found at i:48385018 original size:81 final size:81
Alignment explanation
Indices: 48384881--48385046 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 81
48384871 CTAATATTTA
** ** * * *
48384881 TAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCAAAAAACCTTTATAGGGTAAAATGATCG
1 TAAAATGACCGTAATACCCCCATAGGGTAAAATGACCAAAAAACCCCTATAAGGTAAAATGACCA
48384946 TAATGCCCCT-GTAGGG
66 TAATGCCCCTAG-AGGG
** * * *
48384962 TAAAATGATTGTAATACCCCCATAGGGTTAAATGACCGAAATACCCCTATAAGGTAAAATGACCA
1 TAAAATGACCGTAATACCCCCATAGGGTAAAATGACCAAAAAACCCCTATAAGGTAAAATGACCA
*
48385027 TAATGTCCCTAGAGGG
66 TAATGCCCCTAGAGGG
48385043 TAAA
1 TAAA
48385047 TAACTATTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 70 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (81 bp):
TAAAATGACCGTAATACCCCCATAGGGTAAAATGACCAAAAAACCCCTATAAGGTAAAATGACCA
TAATGCCCCTAGAGGG
Found at i:48385140 original size:24 final size:24
Alignment explanation
Indices: 48385069--48385177 Score: 110
Period size: 24 Copynumber: 4.5 Consensus size: 24
48385059 CCATCGAGTG
* *
48385069 TAAATGATTGATTTGTCTGTGATG
1 TAAATGACTGATTTGTCTGTGATT
* *
48385093 TAAATGACTAATTTATCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
48385117 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*** * * *
48385141 GGTATGATTGATTTGTGTGTAATT
1 TAAATGACTGATTTGTCTGTGATT
**
48385165 TGTATGACTGATT
1 TAAATGACTGATT
48385178 CTGAGCATGG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.47
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:48385311 original size:27 final size:27
Alignment explanation
Indices: 48385259--48385311 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
48385249 TGGTGGTTCT
**
48385259 GCCACAATCACTGTTACTAGTGGCTTG
1 GCCACAATCACTGTTACTAGCAGCTTG
*
48385286 GCCACATAT-ACTGTTACTGGCAGCTT
1 GCCACA-ATCACTGTTACTAGCAGCTT
48385312 TGCTGCGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTGTTACTAGCAGCTTG
Found at i:48385404 original size:32 final size:32
Alignment explanation
Indices: 48385349--48385555 Score: 179
Period size: 32 Copynumber: 6.5 Consensus size: 32
48385339 GCTGTGATGC
** * *
48385349 TACTGATGGCTTTGTGTCAATCATAGT-ACTGC
1 TACTGATGGCTTTGTACCGATCATA-TCACTGT
* *
48385381 TACTGATGGCTTTGTACCGATCATATTACCGT
1 TACTGATGGCTTTGTACCGATCATATCACTGT
* * * *
48385413 TA-TCGATGGCTGTGTGCTGATCATATCACCGT
1 TACT-GATGGCTTTGTACCGATCATATCACTGT
*
48385445 TACTGATGG-TTGTGTACCGATCATATCATTGT
1 TACTGATGGCTT-TGTACCGATCATATCACTGT
* * **
48385477 TACTGATGGCTTTGTACCGATCATGTTACCAT
1 TACTGATGGCTTTGTACCGATCATATCACTGT
* ** *
48385509 TACTGATGG-TTGTGTGCCGATTGTATCACTGC
1 TACTGATGGCTT-TGTACCGATCATATCACTGT
48385541 TACTGATGGCTTTGT
1 TACTGATGGCTTTGT
48385556 GCCAATGACA
Statistics
Matches: 141, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
31 5 0.04
32 131 0.93
33 5 0.04
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTACCGATCATATCACTGT
Found at i:48392549 original size:24 final size:24
Alignment explanation
Indices: 48392498--48392550 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
48392488 TTTACTATTT
* *
48392498 ATTAGTATAATATATTTAGCATTT
1 ATTAGCATAATATATTTAGCATTG
48392522 ATTAGCATAATATATTT-GACATTG
1 ATTAGCATAATATATTTAG-CATTG
48392546 ATTAG
1 ATTAG
48392551 AATTAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (24 bp):
ATTAGCATAATATATTTAGCATTG
Found at i:48396454 original size:16 final size:16
Alignment explanation
Indices: 48396423--48396452 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48396413 GACATGTGTC
48396423 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
48396439 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
48396453 TACTATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:48397253 original size:22 final size:23
Alignment explanation
Indices: 48397184--48397255 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 23
48397174 GTTATTAAAT
48397184 TTTAATAAGATTATTATTACATATAA
1 TTTAATAA-A-TATTATTA-ATATAA
* * *
48397210 TTTAATAAAAAATAATAA-ATAA
1 TTTAATAAATATTATTAATATAA
48397232 TTTAAT-AATATTATTAATATAA
1 TTTAATAAATATTATTAATATAA
48397254 TT
1 TT
48397256 ATTTTTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.21
22 16 0.41
23 1 0.03
24 5 0.13
25 1 0.03
26 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (23 bp):
TTTAATAAATATTATTAATATAA
Found at i:48406913 original size:26 final size:26
Alignment explanation
Indices: 48406877--48406932 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
48406867 TGAAAAACAA
48406877 AAAAGATGAATATATTTATAAGGTTT
1 AAAAGATGAATATATTTATAAGGTTT
48406903 AAAAGATGAATATATTTATAAGGTTT
1 AAAAGATGAATATATTTATAAGGTTT
48406929 AAAA
1 AAAA
48406933 TTTGCCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (26 bp):
AAAAGATGAATATATTTATAAGGTTT
Found at i:48410808 original size:8 final size:8
Alignment explanation
Indices: 48410795--48410821 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
48410785 ATTTTTTGTG
48410795 TAATTTTA
1 TAATTTTA
48410803 TAATTTTA
1 TAATTTTA
48410811 TAATTTTA
1 TAATTTTA
48410819 TAA
1 TAA
48410822 AATAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TAATTTTA
Found at i:48421365 original size:18 final size:17
Alignment explanation
Indices: 48421344--48421379 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48421334 AAAATCACAA
48421344 AGACATGCAAAAAAGCAG
1 AGAC-TGCAAAAAAGCAG
*
48421362 AGACTGCTAAAAAGCAG
1 AGACTGCAAAAAAGCAG
48421379 A
1 A
48421380 AAAATACGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.53, C:0.17, G:0.22, T:0.08
Consensus pattern (17 bp):
AGACTGCAAAAAAGCAG
Found at i:48422557 original size:30 final size:29
Alignment explanation
Indices: 48422521--48422600 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
48422511 ATTTTAAATT
*
48422521 TTCAAAAGTATAGGGACTAAAATTGAACAA
1 TTCAAAAGTATAAGGACTAAAA-TGAACAA
* *
48422551 TTCAAAAAGTACAAGGACTAAAATGATCAA
1 TTC-AAAAGTATAAGGACTAAAATGAACAA
* *
48422581 AT-AAAAGTATATGGACTAAA
1 TTCAAAAGTATAAGGACTAAA
48422601 TCTATAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 16 0.37
30 10 0.23
31 17 0.40
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (29 bp):
TTCAAAAGTATAAGGACTAAAATGAACAA
Found at i:48423628 original size:17 final size:17
Alignment explanation
Indices: 48423606--48423655 Score: 84
Period size: 17 Copynumber: 2.9 Consensus size: 17
48423596 TCTCAGATTT
48423606 TGATACTCATATCTTTC
1 TGATACTCATATCTTTC
48423623 TGATAC-CTATATCTTTC
1 TGATACTC-ATATCTTTC
48423640 TGATACTCATATCTTT
1 TGATACTCATATCTTT
48423656 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.06, T:0.48
Consensus pattern (17 bp):
TGATACTCATATCTTTC
Found at i:48424118 original size:36 final size:35
Alignment explanation
Indices: 48424078--48424151 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
48424068 TTTTAGAATG
* *
48424078 TTTGAA-ATGTAAATTTATATTTTGTAAAATATAATT
1 TTTGAATATATAAA-TT-TATTTTGTAAAATAAAATT
*
48424114 TTTGAATTATATACATTTATTTTGTAAAATAAAATT
1 TTTGAA-TATATAAATTTATTTTGTAAAATAAAATT
48424150 TT
1 TT
48424152 CATTAAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 26 0.79
37 2 0.06
38 5 0.15
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (35 bp):
TTTGAATATATAAATTTATTTTGTAAAATAAAATT
Found at i:48424211 original size:28 final size:28
Alignment explanation
Indices: 48424185--48424237 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
48424175 AAATCAAGAA
48424185 AATCA-AAGGGACATTTTTAA-AGAAAG
1 AATCATAAGGGACATTTTTAATAGAAAG
* *
48424211 ACTGATAAGGGACATTTTTAATAGAAA
1 AATCATAAGGGACATTTTTAATAGAAA
48424238 TCAAGAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 15 0.65
28 5 0.22
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (28 bp):
AATCATAAGGGACATTTTTAATAGAAAG
Found at i:48425038 original size:22 final size:24
Alignment explanation
Indices: 48424997--48425043 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
48424987 AGACATTAAA
*
48424997 ATTTTATGTTAAAATGGTTATTAT
1 ATTTTATGTTAAAATAGTTATTAT
48425021 ATTTT-TGTT-AAATAGTTATTAT
1 ATTTTATGTTAAAATAGTTATTAT
48425043 A
1 A
48425044 CGCAAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 4 0.18
24 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (24 bp):
ATTTTATGTTAAAATAGTTATTAT
Found at i:48427360 original size:39 final size:39
Alignment explanation
Indices: 48427306--48427403 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 39
48427296 TAATTTAGTT
* * * *
48427306 TGAGTCTTTAATTATGTTATAATTTGAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATCTGAACAACATTAATA
48427345 TGAGTTTTTAATTATGTCATAATCTGAACAACATTAATA
1 TGAGTTTTTAATTATGTCATAATCTGAACAACATTAATA
48427384 --AGTGTTTTAATTATGTCATA
1 TGAGT-TTTTAATTATGTCATA
48427404 GTTTAGGACA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
37 3 0.06
38 16 0.30
39 35 0.65
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (39 bp):
TGAGTTTTTAATTATGTCATAATCTGAACAACATTAATA
Found at i:48427421 original size:39 final size:38
Alignment explanation
Indices: 48427312--48427438 Score: 114
Period size: 39 Copynumber: 3.3 Consensus size: 38
48427302 AGTTTGAGTC
* * * *
48427312 TTTAATTATGTTATAATTTGAACATCATTAATATGA-GTT
1 TTTAATTATGTCATAATCTGAACAACATTAATA-CATG-T
48427351 TTTAATTATGTCATAATCTGAACAACATTAATA-AGTGT
1 TTTAATTATGTCATAATCTGAACAACATTAATACA-TGT
* * * * *
48427389 TTTAATTATGTCATAGTTTAGGACAGCTTTAATACATGT
1 TTTAATTATGTCATAATCT-GAACAACATTAATACATGT
*
48427428 TTTAAGTATGT
1 TTTAATTATGT
48427439 TTAAATTCGG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
37 1 0.01
38 18 0.24
39 55 0.73
40 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.45
Consensus pattern (38 bp):
TTTAATTATGTCATAATCTGAACAACATTAATACATGT
Found at i:48434463 original size:13 final size:14
Alignment explanation
Indices: 48434439--48434467 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48434429 AATTTCAAAC
48434439 TTTTAAATTGAAAT
1 TTTTAAATTGAAAT
48434453 TTTTAAA-TGAAAT
1 TTTTAAATTGAAAT
48434466 TT
1 TT
48434468 GTCTCCAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTTAAATTGAAAT
Found at i:48435163 original size:78 final size:78
Alignment explanation
Indices: 48435077--48435230 Score: 299
Period size: 78 Copynumber: 2.0 Consensus size: 78
48435067 CTATAACATT
48435077 TAAATTTTGACAAACAAACGAAAATATTATAGAAAGGGTTAATTGTATAATCATCTTTTATTAAC
1 TAAATTTTGACAAACAAACGAAAATATTATAGAAAGGGTTAATTGTATAATCATCTTTTATTAAC
48435142 AACTATCATTATC
66 AACTATCATTATC
*
48435155 TAAATTTTGACAAACAAACGAAAATATTATAGAAAGGGTTAATTGTATAATCATCTTTTGTTAAC
1 TAAATTTTGACAAACAAACGAAAATATTATAGAAAGGGTTAATTGTATAATCATCTTTTATTAAC
48435220 AACTATCATTA
66 AACTATCATTA
48435231 AACATATAAG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (78 bp):
TAAATTTTGACAAACAAACGAAAATATTATAGAAAGGGTTAATTGTATAATCATCTTTTATTAAC
AACTATCATTATC
Found at i:48440060 original size:14 final size:14
Alignment explanation
Indices: 48440041--48440067 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48440031 TGGATTGCGC
48440041 GCGACGAGTGCGGA
1 GCGACGAGTGCGGA
48440055 GCGACGAGTGCGG
1 GCGACGAGTGCGG
48440068 CGTGTGGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.22, G:0.52, T:0.07
Consensus pattern (14 bp):
GCGACGAGTGCGGA
Found at i:48440782 original size:44 final size:45
Alignment explanation
Indices: 48440692--48440785 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 45
48440682 AAGACTTGTA
* **
48440692 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
* * *
48440737 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
48440781 TCTTC
1 TCTTC
48440786 AATCGATTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 27 0.63
45 16 0.37
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
Found at i:48441051 original size:132 final size:132
Alignment explanation
Indices: 48440770--48441195 Score: 649
Period size: 132 Copynumber: 3.2 Consensus size: 132
48440760 ACATGAAGAC
* * * * * * *
48440770 AAGATCTGCTT-TCTTCAATCGATTCGACTGCCGACC-GGGGGATAGAATTACTGGCTTCAATAT
1 AAGATCTG-TTATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGT
* * *
48440833 ACTCCACTGCAACTTCAGGGAGGTAAAATCTGTCATCTTTGATATGCTCCACTACTGCTTAGGGA
65 ACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGA
48440898 GAT
130 GAT
* *
48440901 AAGATCTGTAATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTGGCTTCAATGTA
1 AAGATCTGTTATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
* *
48440966 CTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGTTTAGAGAG
66 CTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
48441031 AT
131 AT
* * *
48441033 AAGATCTGTTATCCTTAATCTATTCCACTGCTGCCCAGGGAGACAGATTTACTGGCTTCAATGTA
1 AAGATCTGTTATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
* *
48441098 CTCCACTGCAACCTCAGGGAGGTAAAATCTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
48441163 AT
131 AT
*
48441165 AAGATCTGTTATCTTTAATCTATTCAACTGC
1 AAGATCTGTTATCTTTAATCTATTCCACTGC
48441196 AATGTCGGGG
Statistics
Matches: 269, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
130 1 0.00
131 28 0.10
132 240 0.89
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGATCTGTTATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
CTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
AT
Found at i:48441180 original size:44 final size:44
Alignment explanation
Indices: 48440832--48441195 Score: 171
Period size: 44 Copynumber: 8.2 Consensus size: 44
48440822 GGCTTCAATA
** * * * * *
48440832 TACTCCACTGCAACTTCAGGGAGGTAAAATCTGTCATCTTTGATA
1 TACTCCACTGCTGC-TCAGGGAGATAAGATCTGTTATCTTTAATC
* * * *
48440877 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATC
1 TACTCCACTGCTGCTCAGGGAGATAAGATCTGTTATCTTTAATC
* * * *
48440921 TATTCCACTGCTGCCCAGGGAGAT-AGA---GTTACTGGCTTCAATG
1 TACTCCACTGCTGCTCAGGGAGATAAGATCTGTTA-T--CTTTAATC
** * * ** *
48440964 TACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATC
1 TACTCCACTGC-TGCTCAGGGAGATAAGATCTGTTATCTTTAATC
* * * * * *
48441009 TGCTCCACTACTGTTTAGAGAGATAAGATCTGTTATCCTTAATC
1 TACTCCACTGCTGCTCAGGGAGATAAGATCTGTTATCTTTAATC
* * * * ** ** * *
48441053 TATTCCACTGCTGCCCAGGGAGA-CAGATTTACTGGCTTCAATG
1 TACTCCACTGCTGCTCAGGGAGATAAGATCTGTTATCTTTAATC
** * * **** *
48441096 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCGTCTTTGATC
1 TACTCCACTGC-TGCTCAGGGAGATAAGATCTGTTATCTTTAATC
* * *
48441141 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATC
1 TACTCCACTGCTGCTCAGGGAGATAAGATCTGTTATCTTTAATC
* *
48441185 TATTCAACTGC
1 TACTCCACTGC
48441196 AATGTCGGGG
Statistics
Matches: 222, Mismatches: 87, Indels: 21
0.67 0.26 0.06
Matches are distributed among these distances:
40 3 0.01
41 1 0.00
43 40 0.18
44 128 0.58
45 47 0.21
47 1 0.00
48 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TACTCCACTGCTGCTCAGGGAGATAAGATCTGTTATCTTTAATC
Found at i:48441304 original size:50 final size:50
Alignment explanation
Indices: 48441254--48441535 Score: 192
Period size: 50 Copynumber: 5.6 Consensus size: 50
48441244 GCACCGTCAG
* * * * *
48441254 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACAATATCAG
1 GGAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATATCAA
* * * ** * *
48441304 GGAAACT-AGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACT-GCTAA
1 GG-AAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATATC-AA
* * * * * * * *
48441354 GGAAGTAAGATTCGTCATTGTGGCTTCAATATTTTTAAGTGCAATATCAG
1 GGAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATATCAA
*** ** * ** *
48441404 GGAAACCAGATCCATCGTCGTAGCTTCAATCTGTTCCACTGCACTA-CTAA
1 GGAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATATC-AA
* * *
48441454 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCAA
1 GGAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATATCAA
*** *
48441504 GGAAACCAGATCCGTCGTCGTAGCTTCAATCT
1 GGAAGTAAGATCCGCCGTCGTAGCTTCAATCT
48441536 GTTCCACTGC
Statistics
Matches: 166, Mismatches: 60, Indels: 12
0.70 0.25 0.05
Matches are distributed among these distances:
49 5 0.03
50 156 0.94
51 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (50 bp):
GGAAGTAAGATCCGCCGTCGTAGCTTCAATCTTTTTAACTGCAATATCAA
Found at i:48441328 original size:100 final size:101
Alignment explanation
Indices: 48441193--48441561 Score: 514
Period size: 100 Copynumber: 3.7 Consensus size: 101
48441183 TCTATTCAAC
* * * * * * *
48441193 TGCAATGTCGGGGAAACCAGATTCATCGTCGTAGCTTCAATTTGTTCCACCGCACCGTC-AGGGA
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCTAAGGA
*
48441257 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
* * * * *
48441293 TACAATATCAGGGAAACTAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTG-CTAAGGA
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCTAAGGA
* * * *
48441357 AGTAAGATTCGTCATTGTGGCTTCAATATTTTTAAG
66 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
*
48441393 TGCAATATCAGGGAAACCAGATCCATCGTCGTAGCTTCAATCTGTTCCACTGCA-C-TACTAAGG
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGT-CTAAGG
48441456 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
65 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
* *
48441493 TGCAATATCAAGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTG-CTAAGGA
1 TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCTAAGGA
48441557 AGTAA
66 AGTAA
48441562 AATCTATGGT
Statistics
Matches: 234, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
99 1 0.00
100 233 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (101 bp):
TGCAATATCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCTAAGGA
AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
Found at i:48441546 original size:200 final size:200
Alignment explanation
Indices: 48441193--48441561 Score: 598
Period size: 200 Copynumber: 1.8 Consensus size: 200
48441183 TCTATTCAAC
* * * * *
48441193 TGCAATGTCGGGGAAACCAGATTCATCGTCGTAGCTTCAATTTGTTCCACCGCACCGTCAGGGAA
1 TGCAATATCAGGGAAACCAGATCCATCGTCGTAGCTTCAATCTGTTCCACCGCACCGTCAAGGAA
* * * *
48441258 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACAATATCAGGGAAACTAGATCTGCCGTC
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAGTACAATATCAAGGAAACCAGATCCGCCGTC
48441323 GTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATTCGTCATTGTGGCTTCAATATTT
131 GTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATTCGTCATTGTGGCTTCAATATTT
48441388 TTAAG
196 TTAAG
*
48441393 TGCAATATCAGGGAAACCAGATCCATCGTCGTAGCTTCAATCTGTTCCACTGCA-C-TACTAAGG
1 TGCAATATCAGGGAAACCAGATCCATCGTCGTAGCTTCAATCTGTTCCACCGCACCGT-C-AAGG
* *
48441456 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAGTGCAATATCAAGGAAACCAGATCCGTCG
64 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAGTACAATATCAAGGAAACCAGATCCGCCG
48441521 TCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAA
129 TCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAA
48441562 AATCTATGGT
Statistics
Matches: 155, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
198 1 0.01
199 2 0.01
200 152 0.98
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (200 bp):
TGCAATATCAGGGAAACCAGATCCATCGTCGTAGCTTCAATCTGTTCCACCGCACCGTCAAGGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAGTACAATATCAAGGAAACCAGATCCGCCGTC
GTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATTCGTCATTGTGGCTTCAATATTT
TTAAG
Found at i:48442814 original size:7 final size:7
Alignment explanation
Indices: 48442795--48442838 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
48442785 TTAGCCTCTC
48442795 CATTTTT
1 CATTTTT
48442802 -ACTTTTT
1 CA-TTTTT
48442809 CATTTTT
1 CATTTTT
48442816 CA-TTTT
1 CATTTTT
48442822 CATCTTTT
1 CAT-TTTT
48442830 CATTTTT
1 CATTTTT
48442837 CA
1 CA
48442839 CATCACTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:48442850 original size:21 final size:21
Alignment explanation
Indices: 48442804--48442850 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
48442794 CCATTTTTAC
**
48442804 TTTTTCATTTTTCATTTTCAT
1 TTTTTCATTTTTCATCATCAT
*
48442825 CTTTTCATTTTTCA-CATCACT
1 TTTTTCATTTTTCATCATCA-T
48442846 TTTTT
1 TTTTT
48442851 TTTGGACTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTCATTTTTCATCATCAT
Found at i:48448530 original size:11 final size:11
Alignment explanation
Indices: 48448514--48448544 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
48448504 GTATTAAGCA
48448514 AAAATAAAACG
1 AAAATAAAACG
*
48448525 AAAATAAAATG
1 AAAATAAAACG
48448536 AAAATAAAA
1 AAAATAAAA
48448545 AAAACCGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (11 bp):
AAAATAAAACG
Found at i:48448776 original size:13 final size:13
Alignment explanation
Indices: 48448758--48448791 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
48448748 GGTGACCGTG
*
48448758 GAGTGCGCGCGAC
1 GAGTGCGAGCGAC
48448771 GAGTGCGGAGCGAC
1 GAGTGC-GAGCGAC
48448785 GAGTGCG
1 GAGTGCG
48448792 GCATGTGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.24, G:0.50, T:0.09
Consensus pattern (13 bp):
GAGTGCGAGCGAC
Found at i:48448785 original size:14 final size:14
Alignment explanation
Indices: 48448766--48448792 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48448756 TGGAGTGCGC
48448766 GCGACGAGTGCGGA
1 GCGACGAGTGCGGA
48448780 GCGACGAGTGCGG
1 GCGACGAGTGCGG
48448793 CATGTGGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.22, G:0.52, T:0.07
Consensus pattern (14 bp):
GCGACGAGTGCGGA
Found at i:48454553 original size:15 final size:15
Alignment explanation
Indices: 48454535--48454569 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
48454525 CAAATGCTAT
48454535 AATAATAAATACAAC
1 AATAATAAATACAAC
*
48454550 AATAATAAATACATC
1 AATAATAAATACAAC
48454565 AATAA
1 AATAA
48454570 CATATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:48459627 original size:14 final size:15
Alignment explanation
Indices: 48459605--48459639 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
48459595 ATTTACATTA
*
48459605 TTTAAAAAATAT-AT
1 TTTACAAAATATAAT
48459619 TTTACAAAATATAAT
1 TTTACAAAATATAAT
48459634 TTTACA
1 TTTACA
48459640 TTTCAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTACAAAATATAAT
Found at i:48460435 original size:7 final size:7
Alignment explanation
Indices: 48460423--48460475 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
48460413 AATATTATAA
48460423 AATAAAT
1 AATAAAT
48460430 AATAAA-
1 AATAAAT
*
48460436 CA-AAAT
1 AATAAAT
48460442 AATAAAT
1 AATAAAT
48460449 AATAAAT
1 AATAAAT
*
48460456 AATAAACA
1 AATAAA-T
*
48460464 AATAAAA
1 AATAAAT
48460471 AATAA
1 AATAA
48460476 TTTTGATCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 3 0.08
6 2 0.05
7 29 0.73
8 6 0.15
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (7 bp):
AATAAAT
Found at i:48460452 original size:26 final size:25
Alignment explanation
Indices: 48460423--48460476 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
48460413 AATATTATAA
*
48460423 AATAAATAATAAACAAAATAATAAAT
1 AATAAATAATAAAC-AAATAAAAAAT
48460449 AATAAATAATAAACAAATAAAAAAT
1 AATAAATAATAAACAAATAAAAAAT
48460474 AAT
1 AAT
48460477 TTTGATCACC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (25 bp):
AATAAATAATAAACAAATAAAAAAT
Found at i:48471701 original size:10 final size:11
Alignment explanation
Indices: 48471678--48471724 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
48471668 AGTAACTAAC
48471678 AAAATAACATT
1 AAAATAACATT
48471689 AAAATAA-ATT
1 AAAATAACATT
* *
48471699 AAAAACAACATA
1 -AAAATAACATT
*
48471711 AAAATAACAAT
1 AAAATAACATT
48471722 AAA
1 AAA
48471725 CAAACTACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
10 3 0.10
11 24 0.83
12 2 0.07
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAACATT
Found at i:48482983 original size:21 final size:21
Alignment explanation
Indices: 48482959--48483001 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48482949 TGCTCATTAA
48482959 ACTT-ATTAATAAAATATATAT
1 ACTTGATT-ATAAAATATATAT
* *
48482980 ACTTGATTTTCAAATATATAT
1 ACTTGATTATAAAATATATAT
48483001 A
1 A
48483002 ATATTTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
ACTTGATTATAAAATATATAT
Found at i:48483190 original size:41 final size:41
Alignment explanation
Indices: 48483111--48483219 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 41
48483101 ACCGACTTTT
* * * * * *
48483111 AGCCTGCTAGAC-TTATAGTCCGAATAATTTCACTGGCATGA
1 AGCCTGCTAGACAATA-AGTCTGAATTATATCACCGGCATCA
*
48483152 AGCCTGCTAGGCAATGAA-TCTGAATTATATCACCGGCATCA
1 AGCCTGCTAGACAAT-AAGTCTGAATTATATCACCGGCATCA
48483193 AGCCTGCTAGACAATAAGTCTGAATTA
1 AGCCTGCTAGACAATAAGTCTGAATTA
48483220 CATTCGATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
40 2 0.04
41 52 0.91
42 2 0.04
43 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACAATAAGTCTGAATTATATCACCGGCATCA
Found at i:48484894 original size:13 final size:13
Alignment explanation
Indices: 48484876--48484900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48484866 TCAAACGATT
48484876 AAATTTTCACACG
1 AAATTTTCACACG
48484889 AAATTTTCACAC
1 AAATTTTCACAC
48484901 ATATAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:48488114 original size:23 final size:22
Alignment explanation
Indices: 48488080--48488124 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
48488070 AATAGGTTTT
* * *
48488080 GCATGTATAACATGTATGGTTC
1 GCATGAATAACATATAAGGTTC
48488102 GCATGAATAAACATATAAGGTTC
1 GCATGAAT-AACATATAAGGTTC
48488125 ACACATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (22 bp):
GCATGAATAACATATAAGGTTC
Found at i:48488330 original size:29 final size:29
Alignment explanation
Indices: 48488286--48488361 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
48488276 GTTTTCATTC
*
48488286 ATAATGGTTT-GCATACAAGGGTTCGCCT
1 ATAAGGGTTTCGCATACAAGGGTTCGCCT
* * *
48488314 ATAGGGGTTTCGCATACATGGGTTCTCCT
1 ATAAGGGTTTCGCATACAAGGGTTCGCCT
48488343 ATAAGGG-TTCGCATACAAG
1 ATAAGGGTTTCGCATACAAG
48488362 AGGGTCATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 19 0.46
29 22 0.54
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (29 bp):
ATAAGGGTTTCGCATACAAGGGTTCGCCT
Found at i:48488336 original size:15 final size:15
Alignment explanation
Indices: 48488291--48488361 Score: 53
Period size: 14 Copynumber: 5.0 Consensus size: 15
48488281 CATTCATAAT
48488291 GGTTT-GCATACAAG
1 GGTTTCGCATACAAG
* * *
48488305 GG-TTCGCCTATAGG
1 GGTTTCGCATACAAG
*
48488319 GGTTTCGCATACATG
1 GGTTTCGCATACAAG
*
48488334 GGTTCTC-C-TATAAG
1 GGTT-TCGCATACAAG
48488348 GG-TTCGCATACAAG
1 GGTTTCGCATACAAG
48488362 AGGGTCATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 2 0.05
13 4 0.09
14 21 0.49
15 14 0.33
16 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (15 bp):
GGTTTCGCATACAAG
Found at i:48488449 original size:15 final size:15
Alignment explanation
Indices: 48488429--48488462 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
48488419 TTTAGATCCC
*
48488429 ACACCTGATTTGAGG
1 ACACCTGATTTGAAG
48488444 ACACCTGATTTGAAG
1 ACACCTGATTTGAAG
48488459 ACAC
1 ACAC
48488463 AAAAAACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (15 bp):
ACACCTGATTTGAAG
Found at i:48495992 original size:116 final size:116
Alignment explanation
Indices: 48495788--48496029 Score: 475
Period size: 116 Copynumber: 2.1 Consensus size: 116
48495778 TGGGTTAGCG
48495788 AAAACATTTCTGCTGTATTCATGACGAAACCAGTAGCCAATCGAGAATGGGGAAAGGAAAGCACT
1 AAAACATTTCTGCTGTATTCATGACGAAACCAGTAGCCAATCGAGAATGGGGAAAGGAAAGCACT
48495853 CGAAACTAGTTTTATAGAAAATCTATAGTAGATTTAATTAAAACTGCTAAA
66 CGAAACTAGTTTTATAGAAAATCTATAGTAGATTTAATTAAAACTGCTAAA
48495904 AAAACATTTCTGCTGTATTCATGACGAAACCAGTAGCCAATCGAGAATGGGGAAAGGAAAGCACT
1 AAAACATTTCTGCTGTATTCATGACGAAACCAGTAGCCAATCGAGAATGGGGAAAGGAAAGCACT
48495969 CGAAACTAGTTTTATAGAAAATCTATAGTAGATTTAATTAAAACTGCTAAA
66 CGAAACTAGTTTTATAGAAAATCTATAGTAGATTTAATTAAAACTGCTAAA
*
48496020 AAAATATTTC
1 AAAACATTTC
48496030 AATTAATTTA
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 125 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (116 bp):
AAAACATTTCTGCTGTATTCATGACGAAACCAGTAGCCAATCGAGAATGGGGAAAGGAAAGCACT
CGAAACTAGTTTTATAGAAAATCTATAGTAGATTTAATTAAAACTGCTAAA
Found at i:48497269 original size:20 final size:20
Alignment explanation
Indices: 48497244--48497281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48497234 ATTATTTTAT
48497244 TTTATATAAATATTTGTTTC
1 TTTATATAAATATTTGTTTC
**
48497264 TTTATATTTATATTTGTT
1 TTTATATAAATATTTGTT
48497282 CGCTAACGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTATATAAATATTTGTTTC
Found at i:48497552 original size:86 final size:85
Alignment explanation
Indices: 48497407--48497718 Score: 378
Period size: 86 Copynumber: 3.7 Consensus size: 85
48497397 TGAAAATAAA
* * * * *
48497407 AATTAAAATTGAATAAAATTTGTTTTGGGATTTATTCCCGCCGTTCAATAGATTTTATTCCATTT
1 AATT-AAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCCATTT
* *
48497472 TTTATTTTTTTTCTAAGCGAG
65 TTTATTTTATTTCTAAACGAG
* * *
48497493 AATTAAAATTAAGTAAAATATGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCTATTT
1 AATT-AAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCCATTT
* *
48497558 TTTATTTTATTTGTAAACAAG
65 TTTATTTTATTTCTAAACGAG
* *
48497579 AATTAAATTAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTTAACAGATTTTATTCCA-TTT
1 AATTAAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCCATTTT
* * *
48497643 TGATTTTGTTTCCAAACGAG
66 TTATTTTATTTCTAAACGAG
* * ** * *
48497663 AATT-AATCAAAT-AATTATGTTTCGGGATTTATTCCTACCATTTAACAAATTTTATT
1 AATTAAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATT
48497719 TTGATTTTGT
Statistics
Matches: 199, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
82 38 0.19
83 7 0.04
84 22 0.11
85 52 0.26
86 80 0.40
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (85 bp):
AATTAAATTAAATAAAATATGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTTATTCCATTTT
TTATTTTATTTCTAAACGAG
Found at i:48497754 original size:77 final size:81
Alignment explanation
Indices: 48497511--48497754 Score: 255
Period size: 85 Copynumber: 3.0 Consensus size: 81
48497501 TTAAGTAAAA
* * * * * * **
48497511 TATGTTTTGGGATTTATTCCCGCCGTTTAACAGATTTTATTCTATTTTTTATTTTATTTGTAAAC
1 TATGTTTCGGGATTTATTCCAGCCATTTAACAGATATTATTC-A-TTTTGATTTTGTTTCCAAAC
* *
48497576 AAGAATTAAATTAAATAAAA
64 AAG-ATTTAATTAAAT-AAT
* * * *
48497596 TCTGTTTCGGGATTTATTCCAGCCGTTTAACAGATTTTATTCCATTTTGATTTTGTTTCCAAACG
1 TATGTTTCGGGATTTATTCCAGCCATTTAACAGATATTATT-CATTTTGATTTTGTTTCCAAACA
* *
48497661 AGAATTAATCAAATAAT
65 AGATTTAATTAAATAAT
48497678 TATGTTTCGGGATTTATTCCTA-CCATTTAACA-A-ATT-TT-ATTTTGATTTTGTTTCCAAACA
1 TATGTTTCGGGATTTATTCC-AGCCATTTAACAGATATTATTCATTTTGATTTTGTTTCCAAACA
48497738 AGATTTAATTAAATAAT
65 AGATTTAATTAAATAAT
48497755 CCAAGTTATA
Statistics
Matches: 139, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
77 36 0.26
79 2 0.01
80 2 0.01
81 1 0.01
82 30 0.22
83 10 0.07
84 18 0.13
85 39 0.28
86 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (81 bp):
TATGTTTCGGGATTTATTCCAGCCATTTAACAGATATTATTCATTTTGATTTTGTTTCCAAACAA
GATTTAATTAAATAAT
Found at i:48498811 original size:57 final size:56
Alignment explanation
Indices: 48498654--48498900 Score: 263
Period size: 57 Copynumber: 4.4 Consensus size: 56
48498644 ATGTGTCCCC
* * * * * *
48498654 TATTTTTTAGAGTTTACAATTTTGTCCCCTA-CTTTAAAATTTTTACAGTTTTACCCC
1 TATTTTTTAGATTTTACAATTTTG-CCCCTATTTTTTAAA-TTTTACAATTTTGCCCA
* * *
48498711 TATTTTTCTA-ATTTTATAATTTT-CACCTATTTTTTAAATTTTACAATTTTGCTCA
1 TATTTTT-TAGATTTTACAATTTTGCCCCTATTTTTTAAATTTTACAATTTTGCCCA
*
48498766 TATTTTTTAGATTTTACAATTTTGCCCCCTATTTTTTAAATTTTACAATATTT-CTCA
1 TATTTTTTAGATTTTACAATTTTG-CCCCTATTTTTTAAATTTTACAAT-TTTGCCCA
* * * * *
48498823 TTTTTTTTAAATTTTACAATTTTGCCCATATTTTTTAGATTTTA-AAGTTTTGCCCT
1 TATTTTTTAGATTTTACAATTTTGCCCCTATTTTTTAAATTTTACAA-TTTTGCCCA
48498879 TA-TTTTTAGATTTTACAATTTT
1 TATTTTTTAGATTTTACAATTTT
48498901 ACCCAAAATT
Statistics
Matches: 163, Mismatches: 19, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
54 2 0.01
55 61 0.37
56 28 0.17
57 67 0.41
58 5 0.03
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.55
Consensus pattern (56 bp):
TATTTTTTAGATTTTACAATTTTGCCCCTATTTTTTAAATTTTACAATTTTGCCCA
Found at i:48498853 original size:85 final size:83
Alignment explanation
Indices: 48498654--48498900 Score: 277
Period size: 84 Copynumber: 3.0 Consensus size: 83
48498644 ATGTGTCCCC
* * * * * * * *
48498654 TATTTTTTAGAGTTTACAATTTTGTCCCCTA-CTTTAAAATTTTTACAGTTTTACCCCTATTTTT
1 TATTTTTTAAATTTTACAATTTTG-CCCATATTTTTTAGA-TTTTACAATTTTGCCCCTATTTTT
* *
48498718 CT-AATTTTATAATTTTCACC
64 -TAAATTTTACAATTTTCACA
*
48498738 TATTTTTTAAATTTTACAATTTTGCTCATATTTTTTAGATTTTACAATTTTGCCCCCTATTTTTT
1 TATTTTTTAAATTTTACAATTTTGCCCATATTTTTTAGATTTTACAATTTTG-CCCCTATTTTTT
*
48498803 AAATTTTACAATATTTCTCA
65 AAATTTTACAAT-TTTCACA
* *
48498823 TTTTTTTTAAATTTTACAATTTTGCCCATATTTTTTAGATTTTA-AAGTTTTGCCCTTA-TTTTT
1 TATTTTTTAAATTTTACAATTTTGCCCATATTTTTTAGATTTTACAA-TTTTGCCCCTATTTTTT
*
48498886 AGATTTTACAATTTT
65 AAATTTTACAATTTT
48498901 ACCCAAAATT
Statistics
Matches: 142, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
82 3 0.02
83 32 0.23
84 55 0.39
85 52 0.37
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.55
Consensus pattern (83 bp):
TATTTTTTAAATTTTACAATTTTGCCCATATTTTTTAGATTTTACAATTTTGCCCCTATTTTTTA
AATTTTACAATTTTCACA
Found at i:48498857 original size:112 final size:112
Alignment explanation
Indices: 48498654--48498900 Score: 290
Period size: 112 Copynumber: 2.2 Consensus size: 112
48498644 ATGTGTCCCC
* * * *
48498654 TATTTTTTAGAGTTTACAATTTTGTCCCCTACTTTAAAATTTTTACAGTTTTACCCCTATTTTTC
1 TATTTTTTAGATTTTACAATTTTGCCCCCTACTTTAAAATTTTTACAATTTTACCCATATTTTTC
* *
48498719 TAATTTTATAATTTTCACCTATTTTTTAAATTTTACAA-TTTTGCTCA
66 TAATTTTACAATTTTCACCTATTTTTTAAATTTTA-AAGTTTTGCCCA
* * *
48498766 TATTTTTTAGATTTTACAATTTTGCCCCCTATTTTTTAAA-TTTTACAATATTT-CTCAT-TTTT
1 TATTTTTTAGATTTTACAATTTTGCCCCCTA-CTTTAAAATTTTTACAAT-TTTACCCATATTTT
* * *
48498828 TTTAAATTTTACAATTTTGC-CCATATTTTTTAGATTTTAAAGTTTTGCCCT
64 TCT-AATTTTACAATTTT-CACC-TATTTTTTAAATTTTAAAGTTTTGCCCA
48498879 TA-TTTTTAGATTTTACAATTTT
1 TATTTTTTAGATTTTACAATTTT
48498901 ACCCAAAATT
Statistics
Matches: 117, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
111 6 0.05
112 77 0.66
113 34 0.29
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.55
Consensus pattern (112 bp):
TATTTTTTAGATTTTACAATTTTGCCCCCTACTTTAAAATTTTTACAATTTTACCCATATTTTTC
TAATTTTACAATTTTCACCTATTTTTTAAATTTTAAAGTTTTGCCCA
Found at i:48498912 original size:28 final size:28
Alignment explanation
Indices: 48498654--48498905 Score: 230
Period size: 28 Copynumber: 9.0 Consensus size: 28
48498644 ATGTGTCCCC
* *
48498654 TATTTTTTAGAGTTTACAATTTTGTCCCC
1 TATTTTTTAGATTTTACAATTTTG-CCCA
* * * * * *
48498683 TA-CTTTAAAATTTTTACAGTTTTACCCC
1 TATTTTTTAGA-TTTTACAATTTTGCCCA
*
48498711 TATTTTTCTA-ATTTTATAATTTT-CACC-
1 TATTTTT-TAGATTTTACAATTTTGC-CCA
* *
48498738 TATTTTTTAAATTTTACAATTTTGCTCA
1 TATTTTTTAGATTTTACAATTTTGCCCA
*
48498766 TATTTTTTAGATTTTACAATTTTGCCCCC
1 TATTTTTTAGATTTTACAATTTTG-CCCA
* *
48498795 TATTTTTTAAATTTTACAATATTT-CTCA
1 TATTTTTTAGATTTTACAAT-TTTGCCCA
* *
48498823 TTTTTTTTAAATTTTACAATTTTGCCCA
1 TATTTTTTAGATTTTACAATTTTGCCCA
*
48498851 TATTTTTTAGATTTTA-AAGTTTTGCCCT
1 TATTTTTTAGATTTTACAA-TTTTGCCCA
*
48498879 TA-TTTTTAGATTTTACAATTTTACCCA
1 TATTTTTTAGATTTTACAATTTTGCCCA
48498906 AAATTTTAAG
Statistics
Matches: 186, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.01
27 46 0.25
28 97 0.52
29 37 0.20
30 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (28 bp):
TATTTTTTAGATTTTACAATTTTGCCCA
Found at i:48499497 original size:46 final size:45
Alignment explanation
Indices: 48499378--48499501 Score: 169
Period size: 45 Copynumber: 2.7 Consensus size: 45
48499368 GCAATTTGTC
* **
48499378 TGCACTGTTTAGTGGTTTATCCACACCATATTAGCAACTTTTATT
1 TGCACTGATTAGTGGTTTATCCACACTGTATTAGCAACTTTTATT
*
48499423 TGCACTGATTAGCGGTTTATCCACACTGTATTAGCAACTTTTATT
1 TGCACTGATTAGTGGTTTATCCACACTGTATTAGCAACTTTTATT
* *
48499468 TGCA-TCGAATTAGTGGTTTACCCTCACTGTATTA
1 TGCACT-G-ATTAGTGGTTTATCCACACTGTATTA
48499502 TTAGTTTTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 46 0.66
46 23 0.33
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (45 bp):
TGCACTGATTAGTGGTTTATCCACACTGTATTAGCAACTTTTATT
Found at i:48515755 original size:51 final size:52
Alignment explanation
Indices: 48515700--48515893 Score: 211
Period size: 51 Copynumber: 3.8 Consensus size: 52
48515690 ATGTGAAAGT
* * *
48515700 GAAAGTGAT-GGTCACGTGTGTAGTACTGTGTGCAGGCTACTACGTGTACCA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * *
48515751 GAAA--GATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCG
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * * **
48515801 GATAGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTG
1 GAAAG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* *
48515852 GATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
48515894 TGTGAACTCG
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
49 3 0.03
50 40 0.34
51 75 0.63
52 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (52 bp):
GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
Found at i:48515989 original size:42 final size:42
Alignment explanation
Indices: 48515902--48516242 Score: 381
Period size: 42 Copynumber: 8.1 Consensus size: 42
48515892 TATGTGAACT
*
48515902 CGTATCATTGATTATAAGGTGGTTGTTAAGTGCTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
* * * *
48515944 CGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCC-C
1 CGTATCATTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCAC
* *
48515986 CGTATCATTGATTATAAGGTGGTTGTTAAGTGTTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
* * * *
48516028 CGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCC-C
1 CGTATCATTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCAC
*
48516070 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAT
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
* *
48516112 CGTATCCTTGATTGTGAAAGG-GGTTGCTATA-TGCTGATTCC-C
1 CGTATCATTGATTAT--AAGGTGGTTGCTA-AGTGCTGATTCCAC
48516154 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
* * ** *
48516196 CGGGATCCTTTGAACATGAGGTGGTTGCTAAGTGCTGATTCCAC
1 C-GTAT-CATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
48516240 CGT
1 CGT
48516243 GTAATGGTTA
Statistics
Matches: 254, Mismatches: 29, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
40 13 0.05
41 54 0.21
42 83 0.33
43 57 0.22
44 47 0.19
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (42 bp):
CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCAC
Found at i:48516043 original size:84 final size:84
Alignment explanation
Indices: 48515902--48516197 Score: 538
Period size: 84 Copynumber: 3.5 Consensus size: 84
48515892 TATGTGAACT
*
48515902 CGTATCATTGATTATAAGGTGGTTGTTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
48515967 TTGCTATGTGTTGATTCCC
66 TTGCTATGTGTTGATTCCC
* *
48515986 CGTATCATTGATTATAAGGTGGTTGTTAAGTGTTGATTCCACCGTATCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
48516051 TTGCTATGTGTTGATTCCC
66 TTGCTATGTGTTGATTCCC
*
48516070 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCATCGTATCCTTGATTGTGAAAGGGG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
* *
48516135 TTGCTATATGCTGATTCCC
66 TTGCTATGTGTTGATTCCC
48516154 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCG
1 CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCG
48516198 GGATCCTTTG
Statistics
Matches: 205, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 205 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.38
Consensus pattern (84 bp):
CGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
TTGCTATGTGTTGATTCCC
Found at i:48527088 original size:22 final size:22
Alignment explanation
Indices: 48527049--48527090 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
48527039 ATTTTAAATA
* *
48527049 GTGTGTTTATTGGGTCCTAATG
1 GTGTATTTATTGGATCCTAATG
*
48527071 GTGTATTTATTGTATCCTAA
1 GTGTATTTATTGGATCCTAA
48527091 GAGTACCAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.48
Consensus pattern (22 bp):
GTGTATTTATTGGATCCTAATG
Found at i:48529135 original size:21 final size:19
Alignment explanation
Indices: 48529083--48529131 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
48529073 GAAAGAAAAC
* *
48529083 GAGAGAAAAATAAAAGAGTTT
1 GAGAGAAGAA-AAAA-AGTGT
48529104 GAGAGAAGAAAAAAAGTGT
1 GAGAGAAGAAAAAAAGTGT
48529123 GAGAGAAGA
1 GAGAGAAGA
48529132 GAAATTAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 13 0.50
20 4 0.15
21 9 0.35
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.12
Consensus pattern (19 bp):
GAGAGAAGAAAAAAAGTGT
Found at i:48529895 original size:19 final size:19
Alignment explanation
Indices: 48529871--48529981 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
48529861 AATCTTCAGG
*
48529871 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
48529890 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
48529909 AATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
48529928 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
48529947 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
48529966 GATATATAATCTTAGA
1 GATATACAATCTTAGA
48529982 AGATATGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 84 1.00
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:48529921 original size:38 final size:38
Alignment explanation
Indices: 48529878--48529981 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
48529868 AGGGATATGC
48529878 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
48529916 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
**
48529954 AATCTTAGATATGATATATAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
48529982 AGATATGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:48529945 original size:57 final size:55
Alignment explanation
Indices: 48529871--48529988 Score: 191
Period size: 57 Copynumber: 2.1 Consensus size: 55
48529861 AATCTTCAGG
*
48529871 GATATGCAATCTTAGATATGATATGCAATCTTAGATATAATATATAATCTTAGATA
1 GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATATAATCTTAGA-A
* *
48529927 TGATATGCAATCTTAGATATGATATATAATCTTAGATATGATATATAATCTTAGAA
1 -GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATATAATCTTAGAA
48529983 GATATG
1 GATATG
48529989 ATTTTGTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 6 0.10
56 1 0.02
57 51 0.88
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (55 bp):
GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATATAATCTTAGAA
Found at i:48530014 original size:22 final size:23
Alignment explanation
Indices: 48529972--48530014 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
48529962 ATATGATATA
*
48529972 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
48529995 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
48530015 GTAGATACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:48530662 original size:22 final size:23
Alignment explanation
Indices: 48530599--48530677 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 23
48530589 TCATATACGC
*
48530599 ATATTTATTTTTTCTAGTATAGTAT
1 ATATTTATTTTATCTA-TAT-GTAT
*
48530624 A-A-TTATTTT-TTTATATGTA-
1 ATATTTATTTTATCTATATGTAT
48530643 ATTATTT-TTTTATCTATATGTAT
1 A-TATTTATTTTATCTATATGTAT
48530666 ATATTTATTTTA
1 ATATTTATTTTA
48530678 GTATACATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 8 0.17
22 19 0.41
23 13 0.28
24 1 0.02
25 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (23 bp):
ATATTTATTTTATCTATATGTAT
Found at i:48535936 original size:19 final size:19
Alignment explanation
Indices: 48535908--48536018 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
48535898 AATCTTCAGG
*
48535908 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
48535927 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
48535946 AATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
48535965 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
48535984 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
48536003 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
48536019 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:48535958 original size:38 final size:38
Alignment explanation
Indices: 48535915--48536018 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
48535905 AGGGATATGC
*
48535915 AATCTTAGATATGATATACAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
48535953 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
48535991 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
48536019 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:48536044 original size:22 final size:21
Alignment explanation
Indices: 48535908--48536044 Score: 105
Period size: 19 Copynumber: 6.9 Consensus size: 21
48535898 AATCTTCAGG
*
48535908 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
**
48535927 GATATACAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
48535946 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48535965 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48535984 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48536003 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
48536025 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
48536045 TTAATTTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
19 79 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Done.