Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 149 of 172
Found at i:48843968 original size:14 final size:15
Alignment explanation
Indices: 48843951--48843985 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
48843941 ATAATAATAG
*
48843951 AAATATAAA-TAGAT
1 AAATAAAAATTAGAT
48843965 AAATAAAAATTAGAT
1 AAATAAAAATTAGAT
48843980 AAATAA
1 AAATAA
48843986 TAATAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATAAAAATTAGAT
Found at i:48845748 original size:143 final size:143
Alignment explanation
Indices: 48845527--48846337 Score: 1077
Period size: 143 Copynumber: 5.7 Consensus size: 143
48845517 CTTCAAGGAG
* * * *
48845527 ATAAGAATT-ACTGTCTTCAGTCTGCGCCGCTGCAACTTCAGGGGGATAAGACTGGTGGCTTCAA
1 ATAAG-ATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
** * * *
48845591 TCCACTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATATGTTCCACT
65 TCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACT
* *
48845656 GCAATTCTAGGGAA
130 GCAACTCCAGGGAA
* * * *
48845670 ATAAGATTCACTTTCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGGCTAGTAGCTTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * *
48845735 CTGCTCCAGTGCAACTTCAGAAAGATAAGATCCGCCATAATCTATAGCTTCAATCTGTTCCACTG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTG
48845800 CAACTCCAGGGAA
131 CAACTCCAGGGAA
* * * * *
48845813 ATAAGATTCACTTTTTTCAATCTGCTTCGCTGCAACTTTAGGGAGATAAGGCTGGTAGCTTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * * *
48845878 CTGCTTCACCGCAACTTCAAGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTATTCTACTG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTG
48845943 CAACTCCAGGGAA
131 CAACTCCAGGGAA
* * * * *
48845956 ATGAGATTCACTTTTTTCAGTCTGCTTCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * *
48846021 CTGCTCCACTACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCATTCTGTTTCAATG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTG
48846086 CAACTCCAGGGAA
131 CAACTCCAGGGAA
* * * *
48846099 ATAAGATTCGCTTTCTTCAGTCTGTTCTGCTGCAACTTCAGGGAAATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * *** *
48846164 CTGCTCCACTACAA-TATTAGAAAGATAAGATCAATCATAATTTGTAGCTTCAATTTGTTCCACT
66 CTGCTCCACTGCAACT-TCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACT
*
48846228 GCAACTCTAGGGAA
130 GCAACTCCAGGGAA
* * *
48846242 ATAAGATTCGCTTTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGATTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * *
48846307 CTGCTCCACTGCTACTTTAGGGAGATGAGAT
66 CTGCTCCACTGCAACTTCAGGAAGATAAGAT
48846338 TTGTAGATTT
Statistics
Matches: 586, Mismatches: 79, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
142 4 0.01
143 581 0.99
144 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (143 bp):
ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTG
CAACTCCAGGGAA
Found at i:48845751 original size:44 final size:45
Alignment explanation
Indices: 48845684--48846049 Score: 153
Period size: 44 Copynumber: 7.8 Consensus size: 45
48845674 GATTCACTTT
* *
48845684 CTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGGCT-AGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* ** *
48845728 CTTCAATCTGCTCCAGTGCAACTTCAGAAAGATAAGATCCGCCATAATCTATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----G-C-TAA---GTAG
* * * ** * * **
48845782 CTTCAATCTGTTCCACTGCAACTCCAGGGAAATAAGATTCACTTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* * * * *
48845827 TTTCAATCTGCTTCGCTGCAACTTTAGGGAGATAAGGCT-GGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* * * *
48845871 CTTCAATCTGCTTCACCGCAACTTCAAGAAGATAAGATCCGCCATAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----G-C-TAA---GTAG
** * * * * ** * * **
48845925 CTTCAATCTATTCTACTGCAACTCCAGGGAAATGAGATTCACTTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* * * * * *
48845970 TTTCAGTCTGCTTCACTGCAATTTCAGGGAGATAAGGCT-GGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* *
48846014 CTTCAATCTGCTCCACTACAACTTCAGGAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
48846050 ATCCGCCATA
Statistics
Matches: 226, Mismatches: 76, Indels: 40
0.66 0.22 0.12
Matches are distributed among these distances:
44 93 0.41
45 59 0.26
48 6 0.03
49 2 0.01
50 2 0.01
51 1 0.00
54 63 0.28
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
Found at i:48853063 original size:19 final size:20
Alignment explanation
Indices: 48853041--48853092 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
48853031 GGTCATTTCG
* *
48853041 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAGATGCA
48853060 TGAAATGTAATGCAGATGCA
1 TGAAATGTAATGCAGATGCA
48853080 TGAAATG-AATGCA
1 TGAAATGTAATGCA
48853093 AAAAGAGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (20 bp):
TGAAATGTAATGCAGATGCA
Found at i:48855727 original size:3 final size:3
Alignment explanation
Indices: 48855719--48855889 Score: 181
Period size: 3 Copynumber: 57.7 Consensus size: 3
48855709 TAAATAAATA
* * *
48855719 AAT AAT AAT AAT -AT AAT AGT AA- AA- AAT AAT AGT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
48855764 AAT AAT AAT AAAT AAT AAT AGT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* * *
48855811 AAT AAT AGT AAT AAT AAT AAT GAT AAT AAAT AAT -AT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * * *
48855856 AAT AAT AAT AGT AGT AGT AGT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48855890 AACAATGATA
Statistics
Matches: 145, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
2 10 0.07
3 127 0.88
4 8 0.06
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48856195 original size:15 final size:15
Alignment explanation
Indices: 48856175--48856204 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48856165 CATTTTATTT
*
48856175 ATATTAGGATAATTA
1 ATATTAAGATAATTA
48856190 ATATTAAGATAATTA
1 ATATTAAGATAATTA
48856205 TAAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:48858269 original size:13 final size:12
Alignment explanation
Indices: 48858251--48858280 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
48858241 AAAACAAATG
48858251 AATAATATGTAA
1 AATAATATGTAA
48858263 CAATAATATGTAA
1 -AATAATATGTAA
48858276 AATAA
1 AATAA
48858281 CATAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (12 bp):
AATAATATGTAA
Found at i:48858682 original size:26 final size:24
Alignment explanation
Indices: 48858644--48858692 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
48858634 ACATAAATAA
*
48858644 ATTTAAAAGAATATATATATAAAG
1 ATTTAAAAGAATATATACATAAAG
*
48858668 ATTTAAAAGAAAATATTTACATAAA
1 ATTTAAAAG--AATATATACATAAA
48858693 ATAATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (24 bp):
ATTTAAAAGAATATATACATAAAG
Found at i:48860827 original size:14 final size:15
Alignment explanation
Indices: 48860795--48860850 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 15
48860785 AAAATAGTAC
48860795 ATATTATTTTATCGATT
1 ATATTATTTTAT-G-TT
48860812 ATATTA-TTTATGTT
1 ATATTATTTTATGTT
48860826 AT-TATATTTTAT-TT
1 ATAT-TATTTTATGTT
48860840 ATA-TATTTTAT
1 ATATTATTTTAT
48860851 TACATATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.25
14 10 0.28
15 6 0.17
16 5 0.14
17 6 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (15 bp):
ATATTATTTTATGTT
Found at i:48860846 original size:13 final size:14
Alignment explanation
Indices: 48860799--48860851 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
48860789 TAGTACATAT
**
48860799 TATTTTATCGATTA
1 TATTTTATTTATTA
48860813 TATTATTTATGTTATTA
1 TA-T-TTTAT-TTATTA
48860830 TATTTTATTTA-TA
1 TATTTTATTTATTA
48860843 TATTTTATT
1 TATTTTATT
48860852 ACATATCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 11 0.32
14 5 0.15
15 6 0.18
16 6 0.18
17 6 0.18
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (14 bp):
TATTTTATTTATTA
Found at i:48860876 original size:14 final size:14
Alignment explanation
Indices: 48860809--48860877 Score: 63
Period size: 13 Copynumber: 4.9 Consensus size: 14
48860799 TATTTTATCG
48860809 ATTATAT-TATTTAT
1 ATTATATATATTT-T
*
48860823 GTTAT-TATATTTT
1 ATTATATATATTTT
48860836 ATT-TATATATTTT
1 ATTATATATATTTT
48860849 ATTACATATCATATTTT
1 ATT--ATAT-ATATTTT
*
48860866 GTTATATATATT
1 ATTATATATATT
48860878 ATTCCTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
12 1 0.02
13 15 0.33
14 14 0.30
15 4 0.09
16 3 0.07
17 9 0.20
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTATATATATTTT
Found at i:48867901 original size:16 final size:17
Alignment explanation
Indices: 48867882--48867921 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
48867872 AATCTTATTT
48867882 TTATATAATTATT-TTA
1 TTATATAATTATTGTTA
48867898 TTATAT-ATTATTGTTA
1 TTATATAATTATTGTTA
*
48867914 TTTTATAA
1 TTATATAA
48867922 AATATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 14 0.67
17 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATAATTATTGTTA
Found at i:48867915 original size:21 final size:21
Alignment explanation
Indices: 48867890--48867930 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48867880 TTTTATATAA
* *
48867890 TTATTTTATTATATATTATTG
1 TTATTTTATAAAATATTATTG
48867911 TTATTTTATAAAATATTATT
1 TTATTTTATAAAATATTATT
48867931 ATTTCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTATAAAATATTATTG
Found at i:48867919 original size:18 final size:17
Alignment explanation
Indices: 48867858--48867971 Score: 56
Period size: 18 Copynumber: 6.4 Consensus size: 17
48867848 TATATTGTTA
*
48867858 TTTATTTTAT-TTTTAAT
1 TTTATTTTATATATT-AT
*
48867875 CTTATTTTTATATAATTAT
1 TTTA-TTTTATAT-ATTAT
48867894 TTTA--TTATATATTAT
1 TTTATTTTATATATTAT
* *
48867909 TGTTATTTTATAAAATAT
1 T-TTATTTTATATATTAT
*
48867927 TATTATTTCTCAT-TCTTAT
1 T-TTATTT-T-ATATATTAT
*
48867946 TTATATATTATTATATTAT
1 TT-TATTTTA-TATATTAT
*
48867965 ATTATTT
1 TTTATTT
48867972 ATTTATATAT
Statistics
Matches: 73, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
15 6 0.08
16 9 0.12
17 4 0.05
18 29 0.40
19 21 0.29
20 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (17 bp):
TTTATTTTATATATTAT
Found at i:48867965 original size:13 final size:13
Alignment explanation
Indices: 48867877--48867979 Score: 51
Period size: 13 Copynumber: 8.2 Consensus size: 13
48867867 TTTTTAATCT
*
48867877 TATTTTTATA-TA
1 TATTATTATATTA
*
48867889 -ATTATTTTATTA
1 TATTATTATATTA
48867901 TA-TATTAT-TGT-
1 TATTATTATAT-TA
**
48867912 TATT-TTATAAAA
1 TATTATTATATTA
*
48867924 TATTATTAT-TTC
1 TATTATTATATTA
* *
48867936 TCATTCTTATTTATA
1 T-ATTATTATAT-TA
48867951 TATTATTATATTA
1 TATTATTATATTA
48867964 TATTATT-TATTTA
1 TATTATTATA-TTA
48867977 TAT
1 TAT
48867980 ATACGTATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
11 14 0.21
12 16 0.24
13 27 0.40
14 9 0.13
15 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:48868021 original size:16 final size:15
Alignment explanation
Indices: 48867997--48868039 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
48867987 TATACTTTCA
*
48867997 TATTATATATTATAAT
1 TATTTTATATTAT-AT
*
48868013 TATTTTATATTATGT
1 TATTTTATATTATAT
*
48868028 CATTTTATATTA
1 TATTTTATATTA
48868040 CTACGTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTTTATATTATAT
Found at i:48870949 original size:19 final size:19
Alignment explanation
Indices: 48870927--48870968 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
48870917 CATGCATTTC
48870927 CATTGCATTGCATCATGTG
1 CATTGCATTGCATCATGTG
*
48870946 CATTGCATTGCATCATTTG
1 CATTGCATTGCATCATGTG
48870965 CATT
1 CATT
48870969 AGATTTTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (19 bp):
CATTGCATTGCATCATGTG
Found at i:48874903 original size:44 final size:44
Alignment explanation
Indices: 48874854--48875476 Score: 957
Period size: 44 Copynumber: 14.2 Consensus size: 44
48874844 TCCTTGAAGC
* * *
48874854 AGATAACAGATTTGGCGTCTCTGTAACGGCAGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
48874898 AGATAATAGATTTGGCGTATCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* **
48874942 AGATAACAGATTTGGCGTCTTTGTAGCGATGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
48874986 AGATAACAGATTTGGCGTCTCTATAGTGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
48875030 AGAT----GATTTGGCATCTCTATAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
48875070 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
48875114 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
48875158 AGATAACAGATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
48875202 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
48875246 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* **
48875290 AGATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATAAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
48875334 AAATAACAGATTTGGCGTCTCTATAGCGGCGGAAAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
48875378 AGATAACAGATTTGGCGTCTTTGTAGTGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* ** *
48875422 AGATGACAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
48875466 AAATAACAGAT
1 AGATAACAGAT
48875477 CGGTGTTCCT
Statistics
Matches: 530, Mismatches: 45, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
40 38 0.07
44 492 0.93
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:48880638 original size:25 final size:25
Alignment explanation
Indices: 48880604--48880654 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
48880594 GTTTAGGGGC
*
48880604 AAAATTGTAATTTTCCCTAAATATG
1 AAAATTGTAATTTTCCCAAAATATG
*
48880629 AAAATTGTAATTTTTCCAAAATATG
1 AAAATTGTAATTTTCCCAAAATATG
48880654 A
1 A
48880655 TTTTGGGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (25 bp):
AAAATTGTAATTTTCCCAAAATATG
Found at i:48881159 original size:47 final size:47
Alignment explanation
Indices: 48881043--48881261 Score: 206
Period size: 47 Copynumber: 4.7 Consensus size: 47
48881033 CGGATATTTG
* * *
48881043 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTATGGATGCGAAC--
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATGA--GATG-TAACTA
*
48881091 -G--TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATGAGATGTAACTA
* * * *
48881135 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC--
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCA-TGA--GATG-TAACTA
* *
48881184 -G--TCCAAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATGAGATGTAACTA
*
48881228 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCA
48881262 CCTATGGATA
Statistics
Matches: 141, Mismatches: 16, Indels: 29
0.76 0.09 0.16
Matches are distributed among these distances:
42 6 0.04
43 8 0.06
45 34 0.24
46 28 0.20
47 55 0.39
48 3 0.02
50 4 0.03
51 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATGAGATGTAACTA
Found at i:48881203 original size:93 final size:93
Alignment explanation
Indices: 48881043--48881305 Score: 438
Period size: 93 Copynumber: 2.8 Consensus size: 93
48881033 CGGATATTTG
*
48881043 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
48881107 TTGAGTCCAAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
*
48881135 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
48881200 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
* * * * *
48881228 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACCTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
48881293 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
48881306 TGCTTATGGG
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
92 33 0.21
93 127 0.79
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGAGATGTAACTA
Found at i:48881208 original size:46 final size:46
Alignment explanation
Indices: 48881047--48881314 Score: 239
Period size: 46 Copynumber: 5.8 Consensus size: 46
48881037 TATTTGGGCA
48881047 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
48881092 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
48881137 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
48881185 TCCAAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * * *
48881230 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACCTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * **
48881278 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48881315 GCGGGTTACA
Statistics
Matches: 180, Mismatches: 24, Indels: 37
0.75 0.10 0.15
Matches are distributed among these distances:
42 6 0.03
43 8 0.04
45 34 0.19
46 60 0.33
47 54 0.30
48 5 0.03
50 7 0.04
51 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:48888689 original size:15 final size:15
Alignment explanation
Indices: 48888669--48888698 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48888659 CATTTTATTT
*
48888669 ATATTAGGATAATTA
1 ATATTAAGATAATTA
48888684 ATATTAAGATAATTA
1 ATATTAAGATAATTA
48888699 TGAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:48889666 original size:12 final size:12
Alignment explanation
Indices: 48889646--48889675 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48889636 CTACTTCCCC
48889646 TTTACTGTTATT
1 TTTACTGTTATT
*
48889658 TTTATTGTTATT
1 TTTACTGTTATT
48889670 TTTACT
1 TTTACT
48889676 ATTTTACAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTACTGTTATT
Found at i:48890129 original size:20 final size:20
Alignment explanation
Indices: 48890097--48890135 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48890087 CATTCAATTA
48890097 ATTTATATTTGGTTTATTTTT
1 ATTTATATTTGGTTT-TTTTT
48890118 ATTTAT-TTTGGTTTTTTT
1 ATTTATATTTGGTTTTTTT
48890136 GGGTGTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (20 bp):
ATTTATATTTGGTTTTTTTT
Found at i:48890798 original size:133 final size:133
Alignment explanation
Indices: 48890402--48891224 Score: 1153
Period size: 133 Copynumber: 6.2 Consensus size: 133
48890392 ACTGCAACTT
* * *
48890402 CTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTATTACC-CTACGAC-TTAGGG
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACT-CCACTACAACTTTAGGG
* * * * * *
48890465 AGTTA--A-GGCTTGCTTAAATCTGCTTCACCGCAACTTTAGGAAGCCAAGATTCATCGTCTTCA
65 AGCTAGGATGG-TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCG
48890527 ATTTG
129 ATTTG
* * ** *
48890532 CTCCACTGCAACTTCATGGAAACAAGATCTACAATCTTCAGCCTGTTACC-CTACGAC-TTAGGG
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACT-CCACTACAACTTTAGGG
* * * * * * *
48890595 AGTTA--A-GGCTTGCTTAAATCTACTTCACCGTAATTTCAGGAAGCCGAGATTCGTCGTCTTCG
65 AGCTAGGATGG-TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCG
48890657 ATTTG
129 ATTTG
* * *
48890662 CTCCACTACAACTTCATGGAGACAAGATTTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
* * * *
48890727 GCTAGGATGGTGGGTTAAATCTGCTTCACTACAACTTCAAGAAGCCAAAATTCGTCGTCTTCGAT
66 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
48890792 TTG
131 TTG
*
48890795 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCTACTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
* * *
48890860 GCTAGTATGGTGGCTTAAATCTGCTTTACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCAAT
66 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
48890925 TTG
131 TTG
* * *
48890928 CTCCACTACAATTTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
* * *
48890993 GCTAGGATGGTGGCTTAAATCTGCTTCACTACAACTTCAAGAAGCCAAGATTCGTCATCTTCGAT
66 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
48891058 TTG
131 TTG
*
48891061 CTCCACTGCGACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
* *
48891126 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCATTGTCTTCGAT
66 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
*
48891191 CTG
131 TTG
*
48891194 CTCCACTGCAACTTCATGGAGACAAGATCTA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTA
48891225 TAGAATCAGT
Statistics
Matches: 627, Mismatches: 61, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
129 2 0.00
130 167 0.27
131 10 0.02
133 446 0.71
134 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (133 bp):
CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
TTG
Found at i:48897944 original size:16 final size:16
Alignment explanation
Indices: 48897900--48897945 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
48897890 TAGAAAGAAT
48897900 TATATGTATAAAATAA
1 TATATGTATAAAATAA
*
48897916 TATAAGGT-T--AATAA
1 TAT-ATGTATAAAATAA
48897930 TATATGTATAAAATAA
1 TATATGTATAAAATAA
48897946 AATTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
16 9 0.38
17 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (16 bp):
TATATGTATAAAATAA
Found at i:48899401 original size:20 final size:20
Alignment explanation
Indices: 48899369--48899407 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48899359 CATTCAATTA
48899369 ATTTATATTTGGTTTATTTTT
1 ATTTATATTTGGTTT-TTTTT
48899390 ATTTAT-TTTGGTTTTTTT
1 ATTTATATTTGGTTTTTTT
48899408 GGGTGTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (20 bp):
ATTTATATTTGGTTTTTTTT
Found at i:48901424 original size:20 final size:20
Alignment explanation
Indices: 48901401--48901439 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48901391 TCTATATGAA
48901401 AAGTACATTATAACATTTAT
1 AAGTACATTATAACATTTAT
** *
48901421 AAGTAGTTTATAACTTTTA
1 AAGTACATTATAACATTTA
48901440 ATGGGTATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (20 bp):
AAGTACATTATAACATTTAT
Found at i:48903444 original size:27 final size:27
Alignment explanation
Indices: 48903414--48903468 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
48903404 TCCAAGCCAA
48903414 TTTAGACTTAGCAGTTCTTCATACTTT
1 TTTAGACTTAGCAGTTCTTCATACTTT
*
48903441 TTTAGACTTAGCAGTTCTTCATGCTTT
1 TTTAGACTTAGCAGTTCTTCATACTTT
48903468 T
1 T
48903469 GTGTCAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (27 bp):
TTTAGACTTAGCAGTTCTTCATACTTT
Found at i:48904750 original size:21 final size:22
Alignment explanation
Indices: 48904726--48904766 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
48904716 ATTACATATT
*
48904726 TTTAGTTTTA-ATTTTTTAAAA
1 TTTAGTTTTAGAATTTTTAAAA
*
48904747 TTTATTTTTAGAATTTTTAA
1 TTTAGTTTTAGAATTTTTAA
48904767 CCAGTCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTAGTTTTAGAATTTTTAAAA
Found at i:48916945 original size:286 final size:286
Alignment explanation
Indices: 48916433--48916979 Score: 1015
Period size: 286 Copynumber: 1.9 Consensus size: 286
48916423 AAAAAAAAAA
* *
48916433 ATTCAAAATAACAGAAAGGCCATAAGCGTAGCAGACAAGAACTTTATTCAAGAATCATATCAAGA
1 ATTCAAAATAACAAAAAGGCCATAAGCATAGCAGACAAGAACTTTATTCAAGAATCATATCAAGA
*
48916498 TATACGAGCGAGACAAAAGTAAAATAACATGACAACTAAAACTGTAAGACATGGATCAGCTTAGC
66 TATACGAGCGAGACAAAAGTAAAATAAAATGACAACTAAAACTGTAAGACATGGATCAGCTTAGC
48916563 AGGAAATCAATCTTTCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACTT
131 AGGAAATCAATCTTTCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACTT
*
48916628 AGCAGTCCCTAATTTTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAGC
196 AGCAGTACCTAATTTTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAGC
48916693 ATAAGGAACTAAATAAATAAATAAGC
261 ATAAGGAACTAAATAAATAAATAAGC
*
48916719 ATTCAAAATAACAAAAAGGTCATAAGCATAGCAGACAAGAACTTTATTCAAGAATCATATCAAGA
1 ATTCAAAATAACAAAAAGGCCATAAGCATAGCAGACAAGAACTTTATTCAAGAATCATATCAAGA
* *
48916784 TATACGAGCGAGACAAAAAGTAAAATAAAATGATAACTAAGACTGTAAGACATGGATCAGCTTAG
66 TATACGAGCGAGAC-AAAAGTAAAATAAAATGACAACTAAAACTGTAAGACATGGATCAGCTTAG
48916849 CAGGAAATCAATCTTTCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACT
130 CAGGAAATCAATCTTTCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACT
48916914 TAGCAG-ACCTAATTTTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAG
195 TAGCAGTACCTAATTTTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAG
48916978 CA
260 CA
48916980 GGCGTTTTAT
Statistics
Matches: 253, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
286 135 0.53
287 118 0.47
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (286 bp):
ATTCAAAATAACAAAAAGGCCATAAGCATAGCAGACAAGAACTTTATTCAAGAATCATATCAAGA
TATACGAGCGAGACAAAAGTAAAATAAAATGACAACTAAAACTGTAAGACATGGATCAGCTTAGC
AGGAAATCAATCTTTCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACTT
AGCAGTACCTAATTTTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAGC
ATAAGGAACTAAATAAATAAATAAGC
Found at i:48924995 original size:55 final size:53
Alignment explanation
Indices: 48924887--48925130 Score: 194
Period size: 55 Copynumber: 4.6 Consensus size: 53
48924877 ATTAGGGTTT
* * * * *
48924887 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTTAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGAC-ATT-GATAAG-TTCATAAGGC
* ** *
48924942 AAGGAAATTATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTT-C-ATAAGGC
* * * * * * *
48924997 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCATAAGGC
* * *
48925050 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCAT-AAGGC
* * *
48925099 AAGGATACCACGTAAGACCATGACAAGTCATG
1 AAGGATACCATGTAAGACCATGTCAAGACATG
48925131 GCAATGGTAA
Statistics
Matches: 156, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 29 0.19
51 1 0.01
52 4 0.03
53 50 0.32
54 4 0.03
55 68 0.44
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCATAAGGC
Found at i:48925093 original size:108 final size:110
Alignment explanation
Indices: 48924894--48925094 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
48924884 TTTAAGGATA
* **
48924894 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTTAGGTTTCTAAGGCAAGGAAATTATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTGAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
48924959 CCATGTCAAGACATGACATTGATAAGTTACTATAAGGTAAAGATC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGTAAAGATC
*
48925004 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTGAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
48925066 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
48925095 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.55
109 7 0.08
110 27 0.33
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTGAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGTAAAGATC
Found at i:48925354 original size:16 final size:16
Alignment explanation
Indices: 48925333--48925363 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48925323 ATAAATTTGA
48925333 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
48925349 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
48925364 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:48929669 original size:19 final size:15
Alignment explanation
Indices: 48929623--48929664 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
48929613 CGATGAATTT
48929623 ATTGAAATTATATTG
1 ATTGAAATTATATTG
48929638 ATTGAAATTATATTG
1 ATTGAAATTATATTG
48929653 ATTG-AATTATAT
1 ATTGAAATTATAT
48929665 AATATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:48930275 original size:19 final size:15
Alignment explanation
Indices: 48930229--48930270 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
48930219 CGATGAATTT
48930229 ATTGAAATTATATTG
1 ATTGAAATTATATTG
48930244 ATTGAAATTATATTG
1 ATTGAAATTATATTG
48930259 ATTG-AATTATAT
1 ATTGAAATTATAT
48930271 AATATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:48935021 original size:22 final size:23
Alignment explanation
Indices: 48934995--48935040 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
48934985 CAACCAAACC
48934995 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
48935017 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
48935040 A
1 A
48935041 CGTCATTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:48935046 original size:23 final size:23
Alignment explanation
Indices: 48935002--48935046 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48934992 ACCAATTCAA
*
48935002 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
48935025 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
48935047 TACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:48938201 original size:18 final size:18
Alignment explanation
Indices: 48938180--48938222 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
48938170 GTTAATTTGA
* *
48938180 TTAATTTGGGTAATTCGG
1 TTAATTTGAGTAATTCAG
* *
48938198 TTAATTCGATTAATTCAG
1 TTAATTTGAGTAATTCAG
48938216 TTAATTT
1 TTAATTT
48938223 TATACTTATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (18 bp):
TTAATTTGAGTAATTCAG
Found at i:48938220 original size:27 final size:27
Alignment explanation
Indices: 48938163--48938221 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
48938153 TTTATACAAA
* **
48938163 TAATTCGGTTAATTTGATTAATTTGGG
1 TAATTCGGTTAATTCGATTAATTCAGG
*
48938190 TAATTCGGTTAATTCGATTAATTCAGT
1 TAATTCGGTTAATTCGATTAATTCAGG
48938217 TAATT
1 TAATT
48938222 TTATACTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (27 bp):
TAATTCGGTTAATTCGATTAATTCAGG
Found at i:48938355 original size:28 final size:29
Alignment explanation
Indices: 48938298--48938358 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
48938288 CAAATTAACC
* ***
48938298 AAAAAAATTTCGGTTCGGTTAATTTTTTA
1 AAAAAAATTTCAGTTCGGTTAATCAGTTA
48938327 AAAAAAATTTCAGTTCGGTTAA-CAGTTA
1 AAAAAAATTTCAGTTCGGTTAATCAGTTA
48938355 AAAA
1 AAAA
48938359 TTTTGAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (29 bp):
AAAAAAATTTCAGTTCGGTTAATCAGTTA
Found at i:48940824 original size:24 final size:23
Alignment explanation
Indices: 48940779--48940824 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48940769 AAAATAGTTT
* *
48940779 TAAAAAAAAATCTGTTTGATAAA
1 TAAAAAAAAATATGTTTAATAAA
*
48940802 TAAAAAAAAATATTTTTCAATAA
1 TAAAAAAAAATATGTTT-AATAA
48940825 TGAAAACTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
TAAAAAAAAATATGTTTAATAAA
Found at i:48941882 original size:37 final size:37
Alignment explanation
Indices: 48941827--48941902 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
48941817 ATATTATGAG
48941827 TTTGATTGCATTTTACATCAAAGAGCAAACAATCCTT
1 TTTGATTGCATTTTACATCAAAGAGCAAACAATCCTT
*
48941864 TTTGGTTGCATTTTACATCAAAGAGCAAACAATCCTT
1 TTTGATTGCATTTTACATCAAAGAGCAAACAATCCTT
48941901 TT
1 TT
48941903 ATGTTAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (37 bp):
TTTGATTGCATTTTACATCAAAGAGCAAACAATCCTT
Found at i:48942602 original size:13 final size:13
Alignment explanation
Indices: 48942586--48942648 Score: 89
Period size: 12 Copynumber: 5.1 Consensus size: 13
48942576 AATGGAAGAT
48942586 GGAAAATGGG-AAG
1 GGAAAA-GGGAAAG
48942599 GG-AAAGGGAAAG
1 GGAAAAGGGAAAG
48942611 GG-AAAGGGAAAG
1 GGAAAAGGGAAAG
48942623 GGAAAAGGGAAAG
1 GGAAAAGGGAAAG
48942636 GG-AAAGGGAAAG
1 GGAAAAGGGAAAG
48942648 G
1 G
48942649 AAAGGAGAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.06
12 31 0.65
13 14 0.29
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (13 bp):
GGAAAAGGGAAAG
Found at i:48942607 original size:6 final size:6
Alignment explanation
Indices: 48942596--48942653 Score: 100
Period size: 6 Copynumber: 9.7 Consensus size: 6
48942586 GGAAAATGGG
48942596 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGAA AAGGGA AAGGGA AAGGGA
1 AAGGGA AAGGGA AAGGGA AAGGGA AAGGG-A AAGGGA AAGGGA AAGGGA
48942645 AA-GGA AAGG
1 AAGGGA AAGG
48942654 AGAGATTGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.10
6 39 0.78
7 6 0.12
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:48942629 original size:25 final size:24
Alignment explanation
Indices: 48942596--48942653 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 24
48942586 GGAAAATGGG
48942596 AAGGGAAAGGGAAAGGGAAAGGGA
1 AAGGGAAAGGGAAAGGGAAAGGGA
48942620 AAGGGAAAAGGGAAAGGGAAAGGGA
1 AAGGG-AAAGGGAAAGGGAAAGGGA
48942645 AA-GGAAAGG
1 AAGGGAAAGG
48942654 AGAGATTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.15
24 7 0.21
25 21 0.64
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (24 bp):
AAGGGAAAGGGAAAGGGAAAGGGA
Found at i:48942673 original size:31 final size:31
Alignment explanation
Indices: 48942596--48942653 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
48942586 GGAAAATGGG
48942596 AAGGGAAAGGGAAAGGGAAAGGGAAAGGGAA
1 AAGGGAAAGGGAAAGGGAAAGGGAAAGGGAA
48942627 AAGGGAAAGGGAAAGGGAAA-GGAAAGG
1 AAGGGAAAGGGAAAGGGAAAGGGAAAGG
48942654 AGAGATTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (31 bp):
AAGGGAAAGGGAAAGGGAAAGGGAAAGGGAA
Found at i:48950742 original size:36 final size:37
Alignment explanation
Indices: 48950692--48950763 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
48950682 ATAAAGTTTC
*
48950692 GGATAACTGAGTATTGAAATTATTAT-TTCTTAGGAT
1 GGATAACTGAGTATTGAAATTAGTATATTCTTAGGAT
* *
48950728 GGATAACTTG-GTATTGTACTTAGTATATTCTTAGGA
1 GGATAAC-TGAGTATTGAAATTAGTATATTCTTAGGA
48950764 GGGCTTGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.42
Consensus pattern (37 bp):
GGATAACTGAGTATTGAAATTAGTATATTCTTAGGAT
Found at i:48957357 original size:15 final size:15
Alignment explanation
Indices: 48957337--48957392 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
48957327 TAAAAATAAT
48957337 TGAAAA-AAATAACAA
1 TGAAAATAAATAA-AA
*
48957352 TGAAAATAGATAGAAA
1 TGAAAATAAATA-AAA
48957368 TG-AAATAAAATAAAA
1 TGAAAAT-AAATAAAA
48957383 T-AAAATAAAT
1 TGAAAATAAAT
48957393 CGATATGACG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 4 0.11
15 18 0.51
16 12 0.34
17 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (15 bp):
TGAAAATAAATAAAA
Found at i:48960894 original size:24 final size:26
Alignment explanation
Indices: 48960865--48960927 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
48960855 ATATACGAAG
*
48960865 CAATTTAAAGTAGA-TAATATA-AA-A
1 CAATTTAAAATA-ATTAATATATAATA
48960889 CAATTTAAAATAATTAATATATAATA
1 CAATTTAAAATAATTAATATATAATA
*
48960915 TAATTTAAAATAA
1 CAATTTAAAATAA
48960928 AATAAAGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 2 0.06
26 13 0.38
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (26 bp):
CAATTTAAAATAATTAATATATAATA
Found at i:48961212 original size:28 final size:28
Alignment explanation
Indices: 48961166--48961253 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
48961156 AAAATAACAG
*
48961166 TATGTAAAGACTTAAAAAACAAATAATGTA
1 TATG-AAAGA-TTTAAAAACAAATAATGTA
* * *
48961196 TATGAAAGATTTAAAAATGACAGTAA-ATA
1 TATGAAAGATTTAAAAA-CA-AATAATGTA
*
48961225 TAT-AAAAATTT-AAAACAAATAATGTA
1 TATGAAAGATTTAAAAACAAATAATGTA
48961251 TAT
1 TAT
48961254 ATGTATAAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
25 4 0.09
26 6 0.13
27 4 0.09
28 14 0.30
29 11 0.23
30 8 0.17
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (28 bp):
TATGAAAGATTTAAAAACAAATAATGTA
Found at i:48966384 original size:21 final size:22
Alignment explanation
Indices: 48966351--48966393 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
48966341 TTTTAACTTG
48966351 AGAAATCAATTTTTG-ATATAAA
1 AGAAATC-ATTTTTGCATATAAA
48966373 AGAAAT-ATTTTTGCATATAAA
1 AGAAATCATTTTTGCATATAAA
48966394 TTTCTAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (22 bp):
AGAAATCATTTTTGCATATAAA
Found at i:48968133 original size:9 final size:9
Alignment explanation
Indices: 48968121--48968152 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
48968111 ACAAATATTA
48968121 AAAATAAAC
1 AAAATAAAC
48968130 AAAATAAAC
1 AAAATAAAC
48968139 AAAATAAAC
1 AAAATAAAC
48968148 AAAAT
1 AAAAT
48968153 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:48972352 original size:561 final size:562
Alignment explanation
Indices: 48971255--48972382 Score: 2177
Period size: 561 Copynumber: 2.0 Consensus size: 562
48971245 TCGGGTATAC
48971255 CGGTAACTTAGTGGCATCTGTATTCAGCTGAAAGGGTGGAGAAGTTTTAGGCCAAGGGAGGAATT
1 CGGTAACTTAGTGGCATCTGTATTCAGC----A--GTGGAGAAGTTTTAGGCCAAGGGAGGAATT
48971320 CTTTAGGGGGAGGTGAGTCCATGAAGATGTTTCCCCTGGTTTGGTTTGGTCTCCACCAGGCTTCA
60 CTTTAGGGGGAGGTGAGTCCATGAAGATGTTTCCCCTGGTTTGGTTTGGTCTCCACCAGGCTTCA
48971385 GTGTAGGGTCTCCTGGTCAGCCATGTTTTAGTGCAGCCGACCAAAACGAACTTAATGTGGCTAAT
125 GTGTAGGGTCTCCTGGTCAGCCATGTTTTAGTGCAGCCGACCAAAACGAACTTAATGTGGCTAAT
48971450 GTTTGTGGGGTAATTCACAGTTTCAGTTGAGTTGGAGAGTTTCACCACCATTGGTGACAACATAT
190 GTTTGTGGGGTAATTCACAGTTTCAGTTGAGTTGGAGAGTTTCACCACCATTGGTGACAACATAT
48971515 CTGAAGAAGGCTCATTACAGGGAGGGTTATACAAGAATGTGTAGAAAATCAAAAGAAGTGGACCT
255 CTGAAGAAGGCTCATTACAGGGAGGGTTATACAAGAATGTGTAGAAAATCAAAAGAAGTGGACCT
*
48971580 AAAATAGCTAGCAATTTGCCTAAAGCAACGAAAGAACGGCTCCTAAACCTGTGTTTCATTTGCAG
320 AAAATAGCTAGCAATTTGCCTAAAGCAAAGAAAGAACGGCTCCTAAACCTGTGTTTCATTTGCAG
48971645 AATCAAAGGAAATGAATGAACTCAACAGAAACCGGAAATTTCTGCTGCATGCAAGTGCAAATCTA
385 AATCAAAGGAAATGAATGAACTCAACAGAAACCGGAAATTTCTGCTGCATGCAAGTGCAAATCTA
48971710 TGAAATGTGGGTTTCAGGAGGTTGGTTTATAATCAGGATTAACCGTAATTGCAATGGATGAAAAT
450 TGAAATGTGGGTTTCAGGAGGTTGGTTTATAATCAGGATTAACCGTAATTGCAATGGATGAAAAT
48971775 GTTGACTTCGTTTAGATTAAAATTGAGTAAGAAAGAGCCAAAATGAAT
515 GTTGACTTCGTTTAGATTAAAATTGAGTAAGAAAGAGCCAAAATGAAT
48971823 CGGTAACTTAGTGGCATCTGTATTCAGC-GTGGAGAAGTTTTAGGCCAAGGGAGGAATTCTTTAG
1 CGGTAACTTAGTGGCATCTGTATTCAGCAGTGGAGAAGTTTTAGGCCAAGGGAGGAATTCTTTAG
48971887 GGGGAGGTGAGTCCATGAAGATGTTTCCCCTGGTTTGGTTTGGTCTCCACCAGGCTTCAGTGTAG
66 GGGGAGGTGAGTCCATGAAGATGTTTCCCCTGGTTTGGTTTGGTCTCCACCAGGCTTCAGTGTAG
48971952 GGTCTCCTGGTCAGCCATGTTTTAGTGCAGCCGACCAAAACGAACTTAATGTGGCTAATGTTTGT
131 GGTCTCCTGGTCAGCCATGTTTTAGTGCAGCCGACCAAAACGAACTTAATGTGGCTAATGTTTGT
48972017 GGGGTAATTCACAGTTTCAGTTGAGTTGGAGAGTTTCACCACCATTGGTGACAACATATCTGAAG
196 GGGGTAATTCACAGTTTCAGTTGAGTTGGAGAGTTTCACCACCATTGGTGACAACATATCTGAAG
48972082 AAGGCTCATTACAGGGAGGGTTATACAAGAATGTGTAGAAAATCAAAAGAAGTGGACCTAAAATA
261 AAGGCTCATTACAGGGAGGGTTATACAAGAATGTGTAGAAAATCAAAAGAAGTGGACCTAAAATA
48972147 GCTAGCAATTTGCCTAAAGCAAAGAAAGAACGGCTCCTAAACCTGTGTTTCATTTGCAGAATCAA
326 GCTAGCAATTTGCCTAAAGCAAAGAAAGAACGGCTCCTAAACCTGTGTTTCATTTGCAGAATCAA
*
48972212 AGGAAATGAATGAACTCAACAGAAATCGGAAATTTCTGCTGCATGCAAGTGCAAATCTATGAAAT
391 AGGAAATGAATGAACTCAACAGAAACCGGAAATTTCTGCTGCATGCAAGTGCAAATCTATGAAAT
48972277 GTGGGTTTCAGGAGGTTGGTTTATAATCAGGATTAACCGTAATTGCAATGGATGAAAATGTTGAC
456 GTGGGTTTCAGGAGGTTGGTTTATAATCAGGATTAACCGTAATTGCAATGGATGAAAATGTTGAC
48972342 TTCGTTTAGATTAAAATTGAGTAAGAAAGAGCCAAAATGAA
521 TTCGTTTAGATTAAAATTGAGTAAGAAAGAGCCAAAATGAA
48972383 CCGAATGGAA
Statistics
Matches: 558, Mismatches: 2, Indels: 7
0.98 0.00 0.01
Matches are distributed among these distances:
561 530 0.95
568 28 0.05
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (562 bp):
CGGTAACTTAGTGGCATCTGTATTCAGCAGTGGAGAAGTTTTAGGCCAAGGGAGGAATTCTTTAG
GGGGAGGTGAGTCCATGAAGATGTTTCCCCTGGTTTGGTTTGGTCTCCACCAGGCTTCAGTGTAG
GGTCTCCTGGTCAGCCATGTTTTAGTGCAGCCGACCAAAACGAACTTAATGTGGCTAATGTTTGT
GGGGTAATTCACAGTTTCAGTTGAGTTGGAGAGTTTCACCACCATTGGTGACAACATATCTGAAG
AAGGCTCATTACAGGGAGGGTTATACAAGAATGTGTAGAAAATCAAAAGAAGTGGACCTAAAATA
GCTAGCAATTTGCCTAAAGCAAAGAAAGAACGGCTCCTAAACCTGTGTTTCATTTGCAGAATCAA
AGGAAATGAATGAACTCAACAGAAACCGGAAATTTCTGCTGCATGCAAGTGCAAATCTATGAAAT
GTGGGTTTCAGGAGGTTGGTTTATAATCAGGATTAACCGTAATTGCAATGGATGAAAATGTTGAC
TTCGTTTAGATTAAAATTGAGTAAGAAAGAGCCAAAATGAAT
Found at i:48989252 original size:38 final size:38
Alignment explanation
Indices: 48989218--48989465 Score: 487
Period size: 38 Copynumber: 6.5 Consensus size: 38
48989208 AAGACCAACA
*
48989218 TTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGG
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
48989256 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
48989294 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
48989332 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
48989370 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
48989408 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
1 TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
48989446 TTGAAAGATACCATGGCAAC
1 TTGAAAGATACCATGGCAAC
48989466 GTGACATGAA
Statistics
Matches: 209, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 209 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (38 bp):
TTGAAAGATACCATGGCAACCTGTGTGTAAGCCCATGG
Found at i:48989510 original size:46 final size:46
Alignment explanation
Indices: 48989435--48989555 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
48989425 AACCTGTGTG
* *
48989435 TAAGCCCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
* *
48989481 TAAGACCTTGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * *
48989527 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
48989556 TCACGTCAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
45 5 0.08
46 61 0.92
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:48989861 original size:23 final size:25
Alignment explanation
Indices: 48989816--48989862 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48989806 AATAAATATA
*
48989816 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
48989841 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
48989863 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:48996075 original size:28 final size:27
Alignment explanation
Indices: 48996012--48996076 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
48996002 TCATAACTTA
*
48996012 TTTATAAAAAAAATTACTTTCTAAAGT
1 TTTATAAAAAAAATTACTTTATAAAGT
**
48996039 TATGGTAAAAAAAATTA-TTTATAAGAAGT
1 T-TTATAAAAAAAATTACTTTAT-A-AAGT
48996068 TTTATAAAA
1 TTTATAAAA
48996077 TGCTTGGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
27 5 0.17
28 20 0.67
29 5 0.17
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (27 bp):
TTTATAAAAAAAATTACTTTATAAAGT
Found at i:48999715 original size:20 final size:20
Alignment explanation
Indices: 48999690--48999731 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48999680 GACTAAATTG
*
48999690 AAAAATTGTAAAATTCATGA
1 AAAAATTCTAAAATTCATGA
* *
48999710 AAAAATTCTAAATTTTATGA
1 AAAAATTCTAAAATTCATGA
48999730 AA
1 AA
48999732 TACATGGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAAATTCTAAAATTCATGA
Found at i:49000455 original size:23 final size:23
Alignment explanation
Indices: 49000428--49000475 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
49000418 TTTCTGATTA
*
49000428 ATGGCTC-TCTGGAACTTTCCGAT
1 ATGGCTCGT-TGGAACTTCCCGAT
*
49000451 ATGGCTCGTTTGAACTTCCCGAT
1 ATGGCTCGTTGGAACTTCCCGAT
49000474 AT
1 AT
49000476 ATATGGCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (23 bp):
ATGGCTCGTTGGAACTTCCCGAT
Found at i:49000515 original size:25 final size:24
Alignment explanation
Indices: 49000388--49000518 Score: 63
Period size: 25 Copynumber: 5.2 Consensus size: 24
49000378 CAGCTCTTAT
* * *
49000388 GAGCGTTCCGATTAAAGGTTCTTTG
1 GAGC-TTCCGATTAATGGCTCTTCG
*
49000413 TGAGCTTTCTGATTAATGGCTC-TCTG
1 -GAGC-TTCCGATTAATGGCTCTTC-G
* *
49000439 GAACTTTCCGA-T-ATGGCTCGTT-T
1 GAGC-TTCCGATTAATGGCTC-TTCG
* * *
49000462 GAACTTCCCGATATATATGGCTATCCG
1 GAGCTT-CCGAT-TA-ATGGCTCTTCG
49000489 GAGCTTCCTGATTAATGGCTCTTCG
1 GAGCTTCC-GATTAATGGCTCTTCG
49000514 GAGCT
1 GAGCT
49000519 ACTCGTTATT
Statistics
Matches: 81, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
22 2 0.02
23 15 0.19
24 1 0.01
25 26 0.32
26 23 0.28
27 14 0.17
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (24 bp):
GAGCTTCCGATTAATGGCTCTTCG
Found at i:49000631 original size:25 final size:24
Alignment explanation
Indices: 49000522--49000632 Score: 66
Period size: 25 Copynumber: 4.5 Consensus size: 24
49000512 CGGAGCTACT
**
49000522 CGTTAT-TGGCTCGCATGAGCTTC
1 CGTTATATGGCTCATATGAGCTTC
* * *
49000545 C-TAATTATGGCTCCTATAAGCTTC
1 CGTTA-TATGGCTCATATGAGCTTC
* * *
49000569 CGTTTATATAGCCTGAAAT-AGCTTCC
1 CG-TTATAT-GGCTCATATGAGCTT-C
* *
49000595 CGTTACAAGGCTCATATGAGCTTC
1 CGTTATATGGCTCATATGAGCTTC
49000619 TCGTTATATGGCTC
1 -CGTTATATGGCTC
49000633 GAAAGAGAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 22 0.34
25 28 0.44
26 10 0.16
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (24 bp):
CGTTATATGGCTCATATGAGCTTC
Found at i:49004233 original size:19 final size:18
Alignment explanation
Indices: 49004209--49004262 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 18
49004199 CTTCCAAGAT
49004209 CCACACGGCCTGGCCATTC
1 CCACACGG-CTGGCCATTC
*
49004228 CCACACAGGTTGGCCATTC
1 CCACAC-GGCTGGCCATTC
49004247 CCACACGGGCTGGCCA
1 CCACAC-GGCTGGCCA
49004263 CACACTCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 29 0.94
20 2 0.06
ACGTcount: A:0.19, C:0.43, G:0.24, T:0.15
Consensus pattern (18 bp):
CCACACGGCTGGCCATTC
Found at i:49010531 original size:20 final size:21
Alignment explanation
Indices: 49010493--49010532 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49010483 GATATTATAT
49010493 TTTTATAATTGAATAGAAAAG
1 TTTTATAATTGAATAGAAAAG
*
49010514 TTTTATAATT-ATTAGAAAA
1 TTTTATAATTGAATAGAAAA
49010533 CCATAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTTATAATTGAATAGAAAAG
Found at i:49012028 original size:31 final size:31
Alignment explanation
Indices: 49011991--49012052 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
49011981 AGTAGAGGGA
49011991 TGGTGGGGATGATGGAGTCTAGAGGGGGAGC
1 TGGTGGGGATGATGGAGTCTAGAGGGGGAGC
49012022 TGGTGGGGATGATGGAGTCTAGAGGGGGAGC
1 TGGTGGGGATGATGGAGTCTAGAGGGGGAGC
49012053 CCCCTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.06, G:0.55, T:0.19
Consensus pattern (31 bp):
TGGTGGGGATGATGGAGTCTAGAGGGGGAGC
Found at i:49015069 original size:18 final size:18
Alignment explanation
Indices: 49015046--49015100 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
49015036 CGAATAAAAC
*
49015046 TTGAGAAAATTGAGAGAG
1 TTGAGAGAATTGAGAGAG
49015064 TTGAGAGAATT-A-AGAG
1 TTGAGAGAATTGAGAGAG
49015080 TTTAGAGAGAATTGAGAGAG
1 -TT-GAGAGAATTGAGAGAG
49015100 T
1 T
49015101 AAAATTTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 19 0.59
19 2 0.06
20 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (18 bp):
TTGAGAGAATTGAGAGAG
Found at i:49015079 original size:9 final size:9
Alignment explanation
Indices: 49015046--49015098 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
49015036 CGAATAAAAC
*
49015046 TTGAGAAAA
1 TTGAGAGAA
*
49015055 TTGAGAGAG
1 TTGAGAGAA
49015064 TTGAGAGAA
1 TTGAGAGAA
* *
49015073 TTAAGAG-T
1 TTGAGAGAA
49015081 TTAGAGAGAA
1 TT-GAGAGAA
49015091 TTGAGAGA
1 TTGAGAGA
49015099 GTAAAATTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
8 2 0.06
9 31 0.89
10 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:49016116 original size:18 final size:18
Alignment explanation
Indices: 49016093--49016147 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
49016083 CGAATAAAAC
*
49016093 TTGAGAAAATTGAGAGAG
1 TTGAGAGAATTGAGAGAG
49016111 TTGAGAGAATT-A-AGAG
1 TTGAGAGAATTGAGAGAG
49016127 TTTAGAGAGAATTGAGAGAG
1 -TT-GAGAGAATTGAGAGAG
49016147 T
1 T
49016148 AAAATTTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 19 0.59
19 2 0.06
20 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (18 bp):
TTGAGAGAATTGAGAGAG
Found at i:49016126 original size:9 final size:9
Alignment explanation
Indices: 49016093--49016145 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
49016083 CGAATAAAAC
*
49016093 TTGAGAAAA
1 TTGAGAGAA
*
49016102 TTGAGAGAG
1 TTGAGAGAA
49016111 TTGAGAGAA
1 TTGAGAGAA
* *
49016120 TTAAGAG-T
1 TTGAGAGAA
49016128 TTAGAGAGAA
1 TT-GAGAGAA
49016138 TTGAGAGA
1 TTGAGAGA
49016146 GTAAAATTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
8 2 0.06
9 31 0.89
10 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:49017060 original size:21 final size:21
Alignment explanation
Indices: 49017036--49017077 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
49017026 AGGACTAAAG
49017036 TAAACAAAAAAGTTTAAATAC
1 TAAACAAAAAAGTTTAAATAC
49017057 TAAACAAAAAAGTTTAAATAC
1 TAAACAAAAAAGTTTAAATAC
49017078 CAAAATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (21 bp):
TAAACAAAAAAGTTTAAATAC
Found at i:49017377 original size:25 final size:25
Alignment explanation
Indices: 49017349--49017397 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
49017339 TATTATTTTT
49017349 AATTTAATAT-TTAATAATTTTATAC
1 AATTTAATATATTAA-AATTTTATAC
* *
49017374 AATTTTATTTATTAAAATTTTATA
1 AATTTAATATATTAAAATTTTATA
49017398 TATAGTCACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
AATTTAATATATTAAAATTTTATAC
Found at i:49018644 original size:18 final size:18
Alignment explanation
Indices: 49018621--49018659 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
49018611 TTTTTTATAT
49018621 TTTTAGCATTTCTTTTAA
1 TTTTAGCATTTCTTTTAA
* * *
49018639 TTTTAGGATTTTTTTTTA
1 TTTTAGCATTTCTTTTAA
49018657 TTT
1 TTT
49018660 CAAAGGGTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTTAGCATTTCTTTTAA
Found at i:49018655 original size:19 final size:19
Alignment explanation
Indices: 49018608--49018656 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
49018598 TTTGTATCTT
*
49018608 ATTTTTTTTATATTTTTAGC
1 ATTTTTTTT-TAATTTTAGC
* *
49018628 A-TTTCTTTTAATTTTAGG
1 ATTTTTTTTTAATTTTAGC
49018646 ATTTTTTTTTA
1 ATTTTTTTTTA
49018657 TTTCAAAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.38
19 14 0.58
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.69
Consensus pattern (19 bp):
ATTTTTTTTTAATTTTAGC
Found at i:49020335 original size:18 final size:18
Alignment explanation
Indices: 49020308--49020359 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
49020298 AAAAATTAAT
49020308 TTAAATTTAATATGCACAA
1 TTAAA-TTAATATGCACAA
*
49020327 TTAAATTAATATGTACAA
1 TTAAATTAATATGCACAA
**
49020345 TTATTTTAATATGCA
1 TTAAATTAATATGCA
49020360 TGTTATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAAATTAATATGCACAA
Found at i:49020548 original size:26 final size:25
Alignment explanation
Indices: 49020518--49020567 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
49020508 ACATTGTTTC
* *
49020518 TAAATTTAAAATTTTTAAATCTATT
1 TAAAATTAAAATTTTTAAATATATT
49020543 TAAAATTAAAATTTTTAAATATATT
1 TAAAATTAAAATTTTTAAATATATT
49020568 ATATGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TAAAATTAAAATTTTTAAATATATT
Found at i:49030770 original size:15 final size:16
Alignment explanation
Indices: 49030732--49030779 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
49030722 TAGCCCCCCT
*
49030732 CTCTCCTTTCCCCTCTC
1 CTCTCCTTT-CTCTCTC
49030749 C-CTCCTTTCTCT-TC
1 CTCTCCTTTCTCTCTC
49030763 CTCTCCTTTCTTCTCTC
1 CTCTCCTTTC-TCTCTC
49030780 TTTTTTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.11
15 11 0.41
16 10 0.37
17 3 0.11
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (16 bp):
CTCTCCTTTCTCTCTC
Found at i:49039646 original size:19 final size:19
Alignment explanation
Indices: 49039597--49039633 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
49039587 ACAATAATAT
49039597 AAAATA-ATGATATGTACAA
1 AAAATATAT-ATATGTACAA
49039616 AAAATATATATATGTACA
1 AAAATATATATATGTACA
49039634 TAATATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (19 bp):
AAAATATATATATGTACAA
Found at i:49040458 original size:16 final size:16
Alignment explanation
Indices: 49040417--49040460 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
49040407 TTTTTTGTTG
49040417 TTTTTTTTTGCTGGAA
1 TTTTTTTTTGCTGGAA
**
49040433 AATTTTTTTGCT-GAA
1 TTTTTTTTTGCTGGAA
49040448 TTTTTTGTTTGCT
1 TTTTTT-TTTGCT
49040461 CTTTTTTCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.14, C:0.07, G:0.16, T:0.64
Consensus pattern (16 bp):
TTTTTTTTTGCTGGAA
Found at i:49040714 original size:29 final size:30
Alignment explanation
Indices: 49040682--49040798 Score: 105
Period size: 30 Copynumber: 3.9 Consensus size: 30
49040672 TGTAATTTTT
* *
49040682 AGAAAATTTA-AGGTTAAAATGTAATTTAA
1 AGAAAATTTAGAGGTCAAAATGAAATTTAA
* * * *
49040711 AGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGAGGTCAAAATGAAATTTAA
* *
49040741 AGAAAGTTTA-AGGGTCAAAATAAAATTT-A
1 AGAAAATTTAGA-GGTCAAAATGAAATTTAA
* *
49040770 AGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTAGAGGTCAAAATGAAATTT
49040799 TTATTTTTTG
Statistics
Matches: 70, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
29 15 0.21
30 55 0.79
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.30
Consensus pattern (30 bp):
AGAAAATTTAGAGGTCAAAATGAAATTTAA
Found at i:49040798 original size:30 final size:30
Alignment explanation
Indices: 49040697--49040798 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
49040687 ATTTAAGGTT
*
49040697 AAAATGTAATTTAAAGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
49040727 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
49040757 AAAATAAAATTT-AAGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
49040787 AAAATGCAATTT
1 AAAATGAAATTT
49040799 TTATTTTTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 3 0.05
30 58 0.95
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:49040798 original size:60 final size:59
Alignment explanation
Indices: 49040682--49040798 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
49040672 TGTAATTTTT
* ** * *
49040682 AGAAAATTTAAGGTTAAAATGTAATTTAAAGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAAGGTCAAAATAAAATTTAAAGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
49040741 AGAAAGTTTAAGGGTCAAAATAAAATTT-AAGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTTAA-GGTCAAAATAAAATTTAAAG-AAAGTTTAGGGGTCAAAATGAAATTT
49040799 TTATTTTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 13 0.27
60 36 0.73
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAAGGTCAAAATAAAATTTAAAGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:49040823 original size:24 final size:24
Alignment explanation
Indices: 49040795--49040840 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
49040785 TCAAAATGCA
49040795 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
*
49040819 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
49040841 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:49041200 original size:75 final size:75
Alignment explanation
Indices: 49041027--49041311 Score: 272
Period size: 80 Copynumber: 3.7 Consensus size: 75
49041017 GACCCTAAGT
* * *
49041027 TCAACTCACCTCTCG-AATTATGAGTTGA-TCTTTTGAAAAAGTAAAAAATTGAAAATACCTCAG
1 TCAACTCACCTCTCGTAA-TATGAGTTGATTTTTTTGAAAAA--CAGAAATTGAAAATACCTCA-
*
49041090 CATGTGACCTGAGGC
62 -ATGTGTCCTGAGGC
* * *
49041105 TTAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAATAT
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAATGT
*
49041170 GTCTTGAGGC
66 GTCCTGAGGC
** * ** * *
49041180 TCAACTCATTTCTCGCAATATGAGTTGACTTTTTTAAAAAAAAAAGCAGGAATTGAAATTACCTC
1 TCAACTCACCTCTCGTAATATGAGTTGA-TTTTTT---TGAAAAA-CAGAAATTGAAAATACCTC
** *
49041245 AGCGTGTCCCGAGGC
61 AATGTGTCCTGAGGC
* *
49041260 TCAACTCACCTCTCGTAATATGAATTGA--TTTTTGAAAAACATAAATTGAAAA
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
49041312 ACGGAAATCG
Statistics
Matches: 169, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
73 10 0.06
74 5 0.03
75 35 0.21
76 6 0.04
77 22 0.13
78 24 0.14
79 16 0.09
80 51 0.30
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (75 bp):
TCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAATGT
GTCCTGAGGC
Found at i:49041437 original size:89 final size:87
Alignment explanation
Indices: 49041220--49041541 Score: 438
Period size: 87 Copynumber: 3.7 Consensus size: 87
49041210 TTTTTAAAAA
* * * * *
49041220 AAAAAGCAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAAT
1 AAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
49041285 TGATTTTTGAAAAACATAAATTG
65 TGATTTTTGAAAAACATAAATTG
* * * *
49041308 AAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
49041373 GATTTTTGAAAAATATAGATTGG
66 GATTTTTGAAAAACATAAATT-G
49041396 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
49041461 TGA--TTT-AAAAACAGT-CATT-
65 TGATTTTTGAAAAACA-TAAATTG
* * *
49041480 AAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
49041542 AATCACCTCT
Statistics
Matches: 211, Mismatches: 20, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
83 59 0.28
86 9 0.04
87 74 0.35
88 6 0.03
89 63 0.30
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACATAAATTG
Found at i:49041549 original size:20 final size:20
Alignment explanation
Indices: 49041524--49041562 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
49041514 GAGGCTTAAC
49041524 TCACCTCTCGCAATATGAAA
1 TCACCTCTCGCAATATGAAA
49041544 TCACCTCTCGCAATATGAA
1 TCACCTCTCGCAATATGAA
49041563 TTGATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (20 bp):
TCACCTCTCGCAATATGAAA
Found at i:49041590 original size:176 final size:175
Alignment explanation
Indices: 49041219--49041553 Score: 435
Period size: 172 Copynumber: 1.9 Consensus size: 175
49041209 TTTTTTAAAA
* * *
49041219 AAAAAAGCAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAA
1 AAAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAA
* *
49041284 TTGATTTTTGAAAAACATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTC
65 TTGA-TTTTGAAAAACATAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGGCTC
* ** * * * *
49041349 AATTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAGATTGG
129 AACTCACCTCTCGCAATATGAAATCACTCTCGAAAAATATAGATTGG
* *
49041396 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
* * * * *
49041461 TGA-TTT-AAAAACAGT-CATT-AAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTTA
66 TGATTTTGAAAAACA-TAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGGCTCA
49041522 ACTCACCTCTCGCAATATGAAATCACCTCTCG
130 ACTCACCTCTCGCAATATGAAATCA-CTCTCG
49041554 CAATATGAAT
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
172 57 0.42
173 13 0.09
174 4 0.03
176 57 0.42
177 6 0.04
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (175 bp):
AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
TGATTTTGAAAAACATAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGGCTCAA
CTCACCTCTCGCAATATGAAATCACTCTCGAAAAATATAGATTGG
Found at i:49041596 original size:14 final size:14
Alignment explanation
Indices: 49041574--49041603 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49041564 TGATTTTTAC
*
49041574 AAAATATAAATTGA
1 AAAACATAAATTGA
49041588 AAAACATAAATTGA
1 AAAACATAAATTGA
49041602 AA
1 AA
49041604 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:49041624 original size:107 final size:103
Alignment explanation
Indices: 49041441--49041648 Score: 283
Period size: 107 Copynumber: 2.0 Consensus size: 103
49041431 GAGGCTCAAC
* * *
49041441 TCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGAACAGAAATTAAAAATACCTCAG
1 TCACCTCTCGCAATATGAATTGATTTAAAAACAGTAATTAAAAACAGAAATTAAAAATACCTCAG
*
49041506 CGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAAA
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAA
* * * *
49041544 TCACCTCTCGCAATATGAATTGATTTTTACAAAATA-TAAATTGAAAAACATAAATTGAAATTAC
1 TCACCTCTCGCAATATGAATTGA--TTTA-AAAACAGT-AATT-AAAAACAGAAATTAAAAATAC
*
49041608 CTCAGCGTGTCCTGAGGCTCAACTCCCCTCTCGCAATATGA
61 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
49041649 GTCGACTTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
103 22 0.24
105 5 0.05
106 8 0.09
107 56 0.62
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (103 bp):
TCACCTCTCGCAATATGAATTGATTTAAAAACAGTAATTAAAAACAGAAATTAAAAATACCTCAG
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAA
Found at i:49046234 original size:39 final size:39
Alignment explanation
Indices: 49046180--49046257 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
49046170 GTAAAGATAG
*
49046180 GCTATGAAATGATTATGGAATTAGTGATAATGCAAAAAA
1 GCTATGAAATGATTATGAAATTAGTGATAATGCAAAAAA
*
49046219 GCTATGAAATGATTATGAAATTAGTGATAATGCGAAAAA
1 GCTATGAAATGATTATGAAATTAGTGATAATGCAAAAAA
49046258 TTGTGACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (39 bp):
GCTATGAAATGATTATGAAATTAGTGATAATGCAAAAAA
Found at i:49047805 original size:97 final size:97
Alignment explanation
Indices: 49047676--49047870 Score: 372
Period size: 97 Copynumber: 2.0 Consensus size: 97
49047666 TGGAATTTCT
* *
49047676 TACTCGATTTCGGCCTCATGCATCACTGCTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCAC
1 TACTCGATTTCAGCCTCATGCATCACTCCTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCAC
49047741 TGGTTCGACCTCTTTCGAATAACATCTTCCAC
66 TGGTTCGACCTCTTTCGAATAACATCTTCCAC
49047773 TACTCGATTTCAGCCTCATGCATCACTCCTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCAC
1 TACTCGATTTCAGCCTCATGCATCACTCCTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCAC
49047838 TGGTTCGACCTCTTTCGAATAACATCTTCCAC
66 TGGTTCGACCTCTTTCGAATAACATCTTCCAC
49047870 T
1 T
49047871 TCGGGTAAAA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.16, C:0.33, G:0.11, T:0.39
Consensus pattern (97 bp):
TACTCGATTTCAGCCTCATGCATCACTCCTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCAC
TGGTTCGACCTCTTTCGAATAACATCTTCCAC
Found at i:49047853 original size:48 final size:48
Alignment explanation
Indices: 49047704--49047853 Score: 112
Period size: 48 Copynumber: 3.1 Consensus size: 48
49047694 TGCATCACTG
49047704 CTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCACTGGTTCGACCT
1 CTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCACTGGTTCGACCT
** *** * ** * **
49047752 CTTTCGAATAACAT-CTTCCACT-ACTCGATTTCAGCCTCA-TGCATC-A-CT
1 CTTTC-CCT-TTTTGCTTCCAGTCACT-G--TTCTTCTTCACTGGTTCGACCT
49047800 CCTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCACTGGTTCGACCT
1 -CTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCACTGGTTCGACCT
49047849 CTTTC
1 CTTTC
49047854 GAATAACATC
Statistics
Matches: 69, Mismatches: 22, Indels: 22
0.61 0.19 0.19
Matches are distributed among these distances:
46 7 0.10
47 5 0.07
48 25 0.36
49 20 0.29
50 5 0.07
51 7 0.10
ACGTcount: A:0.13, C:0.34, G:0.11, T:0.42
Consensus pattern (48 bp):
CTTTCCCTTTTTGCTTCCAGTCACTGTTCTTCTTCACTGGTTCGACCT
Found at i:49053824 original size:17 final size:17
Alignment explanation
Indices: 49053802--49053862 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
49053792 ACAATAATAT
49053802 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
49053819 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
49053836 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
49053850 AAAATATATATAT
1 AAAATATATATAT
49053863 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:49054745 original size:512 final size:513
Alignment explanation
Indices: 49053972--49054997 Score: 1982
Period size: 512 Copynumber: 2.0 Consensus size: 513
49053962 TGAAATGGGC
*
49053972 CTTTGTTGGTGATCTTCACCGGATCAGATTGCCGCAAATAGAGTCAGGTTGACCCGACCATTTTA
1 CTTTGTTGGTGATCTTCACCGGATCAAATTGCCGCAAATAGAGTCAGGTTGACCCGACCATTTTA
49054037 AAATTTAATATTTTTTATTATTGTAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATA
66 AAATTTAATATTTTTTATTATTGTAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATA
49054102 AAATCTACATAAAAGATACAAAATCCAAATTACTTCAACCCAACACAAACCAACCTCAGCCCACT
131 AAATCTACATAAAAGATACAAAATCCAAATTACTTCAACCCAACACAAACCAACCTCAGCCCACT
49054167 AACTTAATAATCCAACACAACCAACCCAACCCACTAACTTAACATATCACCCAACCCACTAATTA
196 AACTTAATAATCCAACACAACCAACCCAACCCACTAACTTAACATATCACCCAACCCACTAATTA
49054232 ACCCAAACTAAATTTAACCCATCAAACCTTACATAAACCAACCCATTAACTAAAATATTTCTTTT
261 ACCCAAACTAAATTTAACCCATCAAACCTTACATAAACCAACCCATTAACTAAAATATTTCTTTT
*
49054297 TTTTTAATACTAA-ACCCCCCAAAACAAACAAGTTTCAGCAGCAAACAAAGAAAATCCAAACTTC
326 TTTTTAATACTAACACCCCCCAAAACAAACAAGTTCCAGCAGCAAACAAAGAAAATCCAAACTTC
* *
49054361 AAGCTGCCTATTCTCCCTCTCCTTCCACCGTGCGCGTCACCAATAGCCACTGTATGCACCACATG
391 AAGCTGCCTATTCTCCCTCTCCTTCCACCGTGCGCGTCACCAACAGCCACCGTATGCACCACATG
49054426 AAATCAGGCTACGGGTAGTTGAGGTTTGGGTTTTGGGGTGGCTGATAATCGATTGGCT
456 AAATCAGGCTACGGGTAGTTGAGGTTTGGGTTTTGGGGTGGCTGATAATCGATTGGCT
*
49054484 CTTTGTTGGTGATCTTCACCGGATCAAATTGCCGCAAATAGAGTCAGGTTGACCTGACCATTTTA
1 CTTTGTTGGTGATCTTCACCGGATCAAATTGCCGCAAATAGAGTCAGGTTGACCCGACCATTTTA
49054549 AAATTTAATATTTTTTATTATTGTAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATA
66 AAATTTAATATTTTTTATTATTGTAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATA
49054614 AAATCTACATAAAAGATACAAAATCCAAATTACTTCAACCCAACACAAACCAACCTCAGCCCACT
131 AAATCTACATAAAAGATACAAAATCCAAATTACTTCAACCCAACACAAACCAACCTCAGCCCACT
49054679 AACTTAATAATCCAACACAACCAACCCAACCCACTAACTTAACATATCACCCAACCCACTAATTA
196 AACTTAATAATCCAACACAACCAACCCAACCCACTAACTTAACATATCACCCAACCCACTAATTA
49054744 ACCCAAACTAAATTTAACCCATCAAACCTTACATAAACCAACCCATTAACTAAAATATTTCTTTT
261 ACCCAAACTAAATTTAACCCATCAAACCTTACATAAACCAACCCATTAACTAAAATATTTCTTTT
*
49054809 TTTTTAATACTAACCCCCCCCAAAACAAACAAGTTCCAGCAGCAAACAAAGAAAATCCAAACTTC
326 TTTTTAATACTAACACCCCCCAAAACAAACAAGTTCCAGCAGCAAACAAAGAAAATCCAAACTTC
*
49054874 AAGCTGCCTATTCTCCCTCTCCTTCCACCGTGCGCGTCACCAGCAGCCACCGTATGCACCACATG
391 AAGCTGCCTATTCTCCCTCTCCTTCCACCGTGCGCGTCACCAACAGCCACCGTATGCACCACATG
49054939 AAATCAGGCTACGGGTAGTTGAGGTTTGGGTTTTGGGGTGGCTGATAATCGATTGGCT
456 AAATCAGGCTACGGGTAGTTGAGGTTTGGGTTTTGGGGTGGCTGATAATCGATTGGCT
49054997 C
1 C
49054998 GGGTATTTAG
Statistics
Matches: 506, Mismatches: 7, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
512 336 0.66
513 170 0.34
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (513 bp):
CTTTGTTGGTGATCTTCACCGGATCAAATTGCCGCAAATAGAGTCAGGTTGACCCGACCATTTTA
AAATTTAATATTTTTTATTATTGTAGTTTTTTTAGACCAATTTTTGTTTAGCCCAATTACAAATA
AAATCTACATAAAAGATACAAAATCCAAATTACTTCAACCCAACACAAACCAACCTCAGCCCACT
AACTTAATAATCCAACACAACCAACCCAACCCACTAACTTAACATATCACCCAACCCACTAATTA
ACCCAAACTAAATTTAACCCATCAAACCTTACATAAACCAACCCATTAACTAAAATATTTCTTTT
TTTTTAATACTAACACCCCCCAAAACAAACAAGTTCCAGCAGCAAACAAAGAAAATCCAAACTTC
AAGCTGCCTATTCTCCCTCTCCTTCCACCGTGCGCGTCACCAACAGCCACCGTATGCACCACATG
AAATCAGGCTACGGGTAGTTGAGGTTTGGGTTTTGGGGTGGCTGATAATCGATTGGCT
Found at i:49055153 original size:17 final size:17
Alignment explanation
Indices: 49055131--49055174 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
49055121 TTTTTGTTGT
49055131 TTTTTTTTGCTGGAA-AA
1 TTTTTTTTGCT-GAATAA
49055148 -TTTTTTTGCTGAATAA
1 TTTTTTTTGCTGAATAA
49055164 TTTTTTTTGCT
1 TTTTTTTTGCT
49055175 CTTTTTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
17 10 0.40
ACGTcount: A:0.18, C:0.07, G:0.14, T:0.61
Consensus pattern (17 bp):
TTTTTTTTGCTGAATAA
Found at i:49055802 original size:691 final size:685
Alignment explanation
Indices: 49054713--49056086 Score: 2626
Period size: 691 Copynumber: 2.0 Consensus size: 685
49054703 CCCAACCCAC
49054713 TAACTTAACATATCACCCAACCCACTAATTAACCCAAACTAAATTTAACCCATCAAACCTTACAT
1 TAACTTAACATATCACCCAACCCACTAATTAACCCAAACTAAATTTAACCCATCAAACCTTACAT
49054778 AAACCAACCCATTAACTAAAATATTTCTTTTTTTTTAATACTAACCCCCCCCAAAACAAACAAGT
66 AAACCAACCCATTAACTAAAATATTTCTTTTTTTTTAATACTAACCCCCCCCAAAACAAACAAGT
49054843 TCCAGCAGCAAACAAAGAAAATCCAAACTTCAAGCTGCCTATTCTCCCTCTCCTTCCACCGTGCG
131 TCCAGCAGCAAACAAAGAAAATCCAAACTTCAAGCTGCCTATTCTCCCTCTCCTTCCACCGTGCG
49054908 CGTCACCAGCAGCCACCGTATGCACCACATGAAATCAGGCTACGGGTAGTTGAGGTTTGGGTTTT
196 CGTCACCAGCAGCCACCGTATGCACCACATGAAATCAGGCTACGGGTAGTTGAGGTTTGGGTTTT
49054973 GGGGTGGCTGATAATCGATTGGCTCGGGTATTTAGAGTGGGTTTCGGTTTGGGAGCTTGGTTGTG
261 GGGGTGGCTGATAATCGATTGGCTCGGGTATTTAGAGTGGGTTTCGGTTTGGGAGCTTGGTTGTG
49055038 GTGTTAATAGTGTTTAGTCCTTGGTTGCTTGGTTGCTTGCCGGATATTGGAGTTTTTTCTTGCTT
326 GTGTTAATAGTGTTTAGTCCTTGGTTGCTTGGTTGCTTGCCGGATATTGGAGTTTTTTCTTGCTT
49055103 AGATTGCTGAATGTTCCTTTTTTGTTGTTTTTTTTTGCTGGAAAATTTTTTTGCTGAATAA-TTT
391 AGATTGCTGAATGTTCCTTTTTTGTTG-TTTTTTTTGCTGGAAAATTTTTTTGCTGAA-AATTTT
49055167 TTTTTGCTCTTTTTTCTCAAATGGGAGAATCCTCCTCTTTTTTGTGTGGTTTTTTTTATTTCTCC
454 TTTTTGCTCTTTTTTCTCAAATGGGAGAATCCTCCTCTTTTTTGTGTGGTTTTTTTTATTTCTCC
49055232 CATTTTGCTTGTTTTTATGCTATTTGCAGGTAGTGGGTGAAGAAGGAGCAGCCACCCATGTTTGT
519 CATTTTGCTTGTTTTTATGCTATTTGCAGGTAGTGGGTGAAGAAGGAGCAGCCACCCATGTTTGT
49055297 GGTCTGAAAATCTGAGAAGTGGGTACCCCAAATCACATAATCTGTTTGAAGGACCAAATCACAAA
584 GGTCTGAAAATCTGAGAAGTGGGTACCCCAAATCACATAATCTGTTTGAAGGACCAAATCACAAA
49055362 TGCAGCAAAACTTCTAGGGCTAAATGTAATTTTTAAT
649 TGCAGCAAAACTTCTAGGGCTAAATGTAATTTTTAAT
*
49055399 TAACTTAACATATCACCCAATCCACTAATTAACCCAAACTAAATTTAA-CCATCAAACCTTACAT
1 TAACTTAACATATCACCCAACCCACTAATTAACCCAAACTAAATTTAACCCATCAAACCTTACAT
49055463 AAACCAACCCATTAACTAAAATATTTCTTTTTTTTTTAATACTAAACTCCCCCCCCCCAAAACAA
66 AAACCAACCCATTAACTAAAATATTTC-TTTTTTTTTAATACT-AA----CCCCCCCCAAAACAA
49055528 ACAAGTTCCAGCAGCAAACAAAGAAAATCCAAACTTCAAGCTGCCTATTCTCCCTCTCCTTCCAC
125 ACAAGTTCCAGCAGCAAACAAAGAAAATCCAAACTTCAAGCTGCCTATTCTCCCTCTCCTTCCAC
* *
49055593 CGTGCGCGTCACCAGTAGCCACTGTATGCACCACATGAAATCAGGCTACGGGTAGTTGAGGTTTG
190 CGTGCGCGTCACCAGCAGCCACCGTATGCACCACATGAAATCAGGCTACGGGTAGTTGAGGTTTG
*
49055658 GGTTTTGGGGTGGCTGATAATCGATTGGCTCGGGTATTTAGAGTGGGTTTCTGTTTGGGAGCTTG
255 GGTTTTGGGGTGGCTGATAATCGATTGGCTCGGGTATTTAGAGTGGGTTTCGGTTTGGGAGCTTG
49055723 GTTGTGGTGTTAATAGTGTTTAGTCCTTGGTTGCTTGGTTGCTTGCCGGATATTGGAGTTTTTTC
320 GTTGTGGTGTTAATAGTGTTTAGTCCTTGGTTGCTTGGTTGCTTGCCGGATATTGGAGTTTTTTC
49055788 TTGCTTAGATTGCTGAATGTTCCTTTTTTGTTGTTTTTTTTGCTGGAAAATTTTTTTGCTGAAAA
385 TTGCTTAGATTGCTGAATGTTCCTTTTTTGTTGTTTTTTTTGCTGGAAAATTTTTTTGCTGAAAA
49055853 TTTTTTTTTGCTCTTTTTTCTCAAATGGGAGAATCCTCCTCTTTTTTGTGTGGTTTTTTTTATTT
450 TTTTTTTTTGCTCTTTTTTCTCAAATGGGAGAATCCTCCTCTTTTTTGTGTGGTTTTTTTTATTT
49055918 CTCCCATTTTGCTTGTTTTTATGCTATTTGCAGGTAGTGGGTGAAGAAGGAGCAGCCACCCATGT
515 CTCCCATTTTGCTTGTTTTTATGCTATTTGCAGGTAGTGGGTGAAGAAGGAGCAGCCACCCATGT
49055983 TTGTGGTCTGAAAATCTGAGAAGTGGGTACCCCAAATCACATAATCTGTTTGAAGGACCAAATCA
580 TTGTGGTCTGAAAATCTGAGAAGTGGGTACCCCAAATCACATAATCTGTTTGAAGGACCAAATCA
49056048 CAAATGCAGCAAAACTTCTAGGGCTAAATGTAATTTTTA
645 CAAATGCAGCAAAACTTCTAGGGCTAAATGTAATTTTTA
49056087 GAAAATTTAG
Statistics
Matches: 677, Mismatches: 4, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
685 43 0.06
686 62 0.09
687 2 0.00
689 2 0.00
690 263 0.39
691 305 0.45
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (685 bp):
TAACTTAACATATCACCCAACCCACTAATTAACCCAAACTAAATTTAACCCATCAAACCTTACAT
AAACCAACCCATTAACTAAAATATTTCTTTTTTTTTAATACTAACCCCCCCCAAAACAAACAAGT
TCCAGCAGCAAACAAAGAAAATCCAAACTTCAAGCTGCCTATTCTCCCTCTCCTTCCACCGTGCG
CGTCACCAGCAGCCACCGTATGCACCACATGAAATCAGGCTACGGGTAGTTGAGGTTTGGGTTTT
GGGGTGGCTGATAATCGATTGGCTCGGGTATTTAGAGTGGGTTTCGGTTTGGGAGCTTGGTTGTG
GTGTTAATAGTGTTTAGTCCTTGGTTGCTTGGTTGCTTGCCGGATATTGGAGTTTTTTCTTGCTT
AGATTGCTGAATGTTCCTTTTTTGTTGTTTTTTTTGCTGGAAAATTTTTTTGCTGAAAATTTTTT
TTTGCTCTTTTTTCTCAAATGGGAGAATCCTCCTCTTTTTTGTGTGGTTTTTTTTATTTCTCCCA
TTTTGCTTGTTTTTATGCTATTTGCAGGTAGTGGGTGAAGAAGGAGCAGCCACCCATGTTTGTGG
TCTGAAAATCTGAGAAGTGGGTACCCCAAATCACATAATCTGTTTGAAGGACCAAATCACAAATG
CAGCAAAACTTCTAGGGCTAAATGTAATTTTTAAT
Found at i:49055843 original size:16 final size:15
Alignment explanation
Indices: 49055822--49055859 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
49055812 TTTTTGTTGT
49055822 TTTTTTTGCTGGAAAA
1 TTTTTTTGCT-GAAAA
49055838 TTTTTTTGCTGAAAA
1 TTTTTTTGCTGAAAA
49055853 TTTTTTT
1 TTTTTTT
49055860 TTGCTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.61
Consensus pattern (15 bp):
TTTTTTTGCTGAAAA
Found at i:49055864 original size:17 final size:17
Alignment explanation
Indices: 49055821--49055860 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
49055811 TTTTTTGTTG
49055821 TTTTTTTTGCTGGAAAA
1 TTTTTTTTGCTGGAAAA
49055838 -TTTTTTTGCT-GAAAA
1 TTTTTTTTGCTGGAAAA
49055853 TTTTTTTT
1 TTTTTTTT
49055861 TGCTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.20, C:0.05, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTTTTTTGCTGGAAAA
Found at i:49056111 original size:29 final size:31
Alignment explanation
Indices: 49056073--49056205 Score: 100
Period size: 30 Copynumber: 4.5 Consensus size: 31
49056063 TTCTAGGGCT
49056073 AAATGTAATTTTTA-GAAAATTTA-GGGTTA
1 AAATGTAATTTTTAGGAAAATTTAGGGGTTA
* * *
49056102 AAATGCAA-TTTAAGGAAAGTTTAGGGGTCT-
1 AAATGTAATTTTTAGGAAAATTTAGGGGT-TA
* * * * * *
49056132 AAGTG-AAATTTAAAGAAAGTTTAAGGGTTA
1 AAATGTAATTTTTAGGAAAATTTAGGGGTTA
* *
49056162 AAATG-AA-ATTTAGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTTTAGGAAAA-TTTAGGGGTTA
49056192 AAATGTAATTTTTA
1 AAATGTAATTTTTA
49056206 TTTTTTAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
28 4 0.05
29 25 0.30
30 46 0.56
31 3 0.04
32 4 0.05
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.34
Consensus pattern (31 bp):
AAATGTAATTTTTAGGAAAATTTAGGGGTTA
Found at i:49056144 original size:30 final size:31
Alignment explanation
Indices: 49056087--49056202 Score: 127
Period size: 30 Copynumber: 3.9 Consensus size: 31
49056077 GTAATTTTTA
* *
49056087 GAAAATTTA-GGGT-TAAAATGCAATTTAAG
1 GAAAGTTTAGGGGTCTAAAATGAAATTTAAG
* *
49056116 GAAAGTTTAGGGGTCT-AAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCTAAAATGAAATTTAAG
*
49056146 GAAAGTTTAAGGGT-TAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCTAAAATGAAATTTAAG
*
49056175 GAAAAGTTTAGGGGTC-AAAATGTAATTT
1 G-AAAGTTTAGGGGTCTAAAATGAAATTT
49056203 TTATTTTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
29 11 0.15
30 61 0.84
31 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.24, T:0.31
Consensus pattern (31 bp):
GAAAGTTTAGGGGTCTAAAATGAAATTTAAG
Found at i:49056202 original size:60 final size:59
Alignment explanation
Indices: 49056073--49056202 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 59
49056063 TTCTAGGGCT
** * *
49056073 AAATGTAATTTTTAGAAAATTTAGGGTTAAAATGCAATTTAAGGAAAGTTTAGGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGGGTTAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
* * *
49056132 AAGTGAAATTTAAAGAAAGTTTAAGGGTTAAAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGGGTTAAAATGAAATTTAAGG-AAAGTTTAGGGGTCA
49056192 AAATGTAATTT
1 AAATGTAATTT
49056203 TTATTTTTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
59 20 0.33
60 40 0.67
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.33
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAGGGTTAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
Found at i:49056231 original size:24 final size:23
Alignment explanation
Indices: 49056199--49056244 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
49056189 TCAAAATGTA
49056199 ATTTTTATTTTTTAAAAAATTTTT
1 ATTTTTATTTTTT-AAAAATTTTT
*
49056223 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTAAAAATTTT
49056245 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTTTATTTTTTAAAAATTTTT
Found at i:49057064 original size:19 final size:19
Alignment explanation
Indices: 49057042--49057098 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
49057032 ATTCCTAATA
*
49057042 TATATTGTATATGTTTATT
1 TATATTGTATATATTTATT
*
49057061 TATATTATGTATATATATATT
1 TATA-T-TGTATATATTTATT
49057082 TAGTA-TGTATATATTTA
1 TA-TATTGTATATATTTA
49057099 GTATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 15 0.47
20 1 0.03
21 14 0.44
22 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TATATTGTATATATTTATT
Found at i:49057097 original size:15 final size:15
Alignment explanation
Indices: 49057069--49057102 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
49057059 TTTATATTAT
49057069 GTATATATATATTTA
1 GTATATATATATTTA
*
49057084 GTATGTATATATTTA
1 GTATATATATATTTA
49057099 GTAT
1 GTAT
49057103 TATTATGTCT
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:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:49057109 original size:21 final size:19
Alignment explanation
Indices: 49057047--49057118 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 19
49057037 TAATATATAT
*
49057047 TGTATATGTTTATTTATATTA
1 TGTATATATTTA-TT-TATTA
* *
49057068 TGTATATATATATTTAGTA
1 TGTATATATTTATTTATTA
49057087 TGTATATATTTAGTATTATTA
1 TGTATATATTTA-T-TTATTA
*
49057108 TGTCTATATTT
1 TGTATATATTT
49057119 TTCATTCCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 15 0.35
20 3 0.07
21 25 0.58
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.58
Consensus pattern (19 bp):
TGTATATATTTATTTATTA
Found at i:49057433 original size:14 final size:15
Alignment explanation
Indices: 49057414--49057442 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49057404 GTTATAAATA
49057414 GTTATT-TTTTTAAT
1 GTTATTATTTTTAAT
49057428 GTTATTATTTTTAAT
1 GTTATTATTTTTAAT
49057443 ATGTATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
GTTATTATTTTTAAT
Found at i:49059824 original size:26 final size:26
Alignment explanation
Indices: 49059776--49059826 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
49059766 CAGAGGTCTA
*
49059776 TTGAGTTTAAGTGGGTCTAAGAACCC
1 TTGAGTTTAAGTGGGTCGAAGAACCC
* * *
49059802 TTGAGTTTGAGTTGGTCGGAGAACC
1 TTGAGTTTAAGTGGGTCGAAGAACC
49059827 ATGAGCAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (26 bp):
TTGAGTTTAAGTGGGTCGAAGAACCC
Found at i:49064748 original size:17 final size:17
Alignment explanation
Indices: 49064726--49064760 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
49064716 AACATTCAAG
49064726 TTAATGATATAATTTTA
1 TTAATGATATAATTTTA
49064743 TTAATGATATAATTTTA
1 TTAATGATATAATTTTA
49064760 T
1 T
49064761 CTTTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTAATGATATAATTTTA
Found at i:49064960 original size:16 final size:16
Alignment explanation
Indices: 49064927--49064960 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49064917 ACATATTGTT
* *
49064927 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
49064943 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
49064959 AA
1 AA
49064961 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:49067468 original size:16 final size:16
Alignment explanation
Indices: 49067443--49067481 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
49067433 TTAAAAAACC
*
49067443 AAAAATAAAACAGAAAT
1 AAAAA-AAAACACAAAT
49067460 AAAAAAAAACACAAAT
1 AAAAAAAAACACAAAT
49067476 AAAAAA
1 AAAAAA
49067482 CCCAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAAAAAAACACAAAT
Found at i:49070786 original size:15 final size:16
Alignment explanation
Indices: 49070764--49070806 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
49070754 GAGAAAAAAG
*
49070764 AGCAAAAAAAAATTCC
1 AGCAAAAAAAATTTCC
49070780 AGCAAAAAAAATTTCC
1 AGCAAAAAAAATTTCC
49070796 AGCAAAAAAAA
1 AGCAAAAAAAA
49070807 CCAAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.65, C:0.16, G:0.07, T:0.12
Consensus pattern (16 bp):
AGCAAAAAAAATTTCC
Found at i:49071376 original size:15 final size:16
Alignment explanation
Indices: 49071343--49071376 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49071333 TTTTATTTGT
49071343 AATTGGTCTAAACAAA
1 AATTGGTCTAAACAAA
*
49071359 AATTGGTCTTAA-AAA
1 AATTGGTCTAAACAAA
49071374 AAT
1 AAT
49071377 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTGGTCTAAACAAA
Found at i:49071384 original size:11 final size:11
Alignment explanation
Indices: 49071368--49071397 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
49071358 AAATTGGTCT
49071368 TAAAAAAATAA
1 TAAAAAAATAA
49071379 TAAAAAAATAA
1 TAAAAAAATAA
49071390 TAAAAAAA
1 TAAAAAAA
49071398 ATATTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:49071384 original size:12 final size:12
Alignment explanation
Indices: 49071369--49071405 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
49071359 AATTGGTCTT
49071369 AAAAAAATAAT-
1 AAAAAAATAATA
49071380 AAAAAAATAATA
1 AAAAAAATAATA
*
49071392 AAAAAAATATTA
1 AAAAAAATAATA
49071404 AA
1 AA
49071406 TTTTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAAAATAATA
Found at i:49073999 original size:24 final size:24
Alignment explanation
Indices: 49073956--49074005 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
49073946 TTCCTTTCTT
49073956 TTGCATTCATTCCATACATTTGCA
1 TTGCATTCATTCCATACATTTGCA
*
49073980 TTGCATTGCATTGCAT-CATTTGCA
1 TTGCATT-CATTCCATACATTTGCA
49074004 TT
1 TT
49074006 AAACTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (24 bp):
TTGCATTCATTCCATACATTTGCA
Found at i:49081375 original size:84 final size:85
Alignment explanation
Indices: 49081245--49081403 Score: 275
Period size: 84 Copynumber: 1.9 Consensus size: 85
49081235 CAATATCTAC
** * *
49081245 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAAGTATTTTC
49081310 AATTTCTGTTCAATTTATGT
66 AATTTCTGTTCAATTTATGT
49081330 TTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAAGTATTTTC
1 TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAAGTATTTTC
49081394 AATTTCTGTT
66 AATTTCTGTT
49081404 TTCAAAATTC
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
84 65 0.93
85 5 0.07
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (85 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAAGTATTTTC
AATTTCTGTTCAATTTATGT
Found at i:49081474 original size:156 final size:157
Alignment explanation
Indices: 49081161--49081475 Score: 490
Period size: 158 Copynumber: 2.0 Consensus size: 157
49081151 TTGAGGTAAT
* * *
49081161 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACATTG
1 TTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACATTA
* **
49081226 AGGTATTTTCAATATCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 AAGTATTTTCAATATCTACTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
49081291 GACACGTTGAGGTATTTTCAATTTCTG
131 GACACGTTGAGGTAATTTCAATTTCTG
* *
49081318 TTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACATT
* * * *
49081383 AAAGTATTTTCAATTTCT-GTTTTC-AAAATTCAACTGATATTGCGAGAAATGAGTTGAGCCTCA
65 AAAGTATTTTCAATATCTACTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
49081446 AGACACGTTGAGGTAATTTCAATTTCTG
130 AGACACGTTGAGGTAATTTCAATTTCTG
49081474 TT
1 TT
49081476 TTCAAAATTC
Statistics
Matches: 144, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
156 64 0.44
157 15 0.10
158 65 0.45
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (157 bp):
TTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACATTA
AAGTATTTTCAATATCTACTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTCTG
Found at i:49081588 original size:77 final size:74
Alignment explanation
Indices: 49081093--49081749 Score: 625
Period size: 72 Copynumber: 8.7 Consensus size: 74
49081083 TGATGCTTTT
* *
49081093 ATTTCTG-TTTC-AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
*
49081156 GTAATTTCA
66 GTATTTTCA
* * **
49081165 ATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACATTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
49081228 GTATTTTCA
66 GTATTTTCA
* * ** *
49081237 ATATCTACTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 ATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGA
49081301 GGTATTTTCA
65 GGTATTTTCA
* *
49081311 ATTTCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 ATTTCTGTT---TTCA-------AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
* * *
49081376 ACACGTTAAAGTATTTTCA
56 ACACGCTGAGGTATTTTCA
* * *
49081395 ATTTCTGTTTTC--AAAATTCAACTGATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
*
49081458 GTAATTTCA
66 GTATTTTCA
* * * *
49081467 ATTTCTGTTTTC--AAAATTCAACTGATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGGG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
*
49081530 GTATTGTCA
66 GTATTTTCA
** ** *
49081539 ATTT-TGATCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACG
1 ATTTCTG-T-TTTC--AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAGACA
*
49081602 CGCTGAGCTATTTTCA
59 CGCTGAGGTATTTTCA
* * ** * * *
49081618 ATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCAGATTACACACT
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGCT
49081683 GAGGTATTTTTTCA
63 GAGGTA--TTTTCA
* * * **
49081697 ATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 ATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
49081750 GGGTCACATG
Statistics
Matches: 499, Mismatches: 56, Indels: 53
0.82 0.09 0.09
Matches are distributed among these distances:
71 2 0.00
72 196 0.39
73 15 0.03
74 61 0.12
76 3 0.01
77 78 0.16
78 1 0.00
79 73 0.15
80 3 0.01
81 2 0.00
84 65 0.13
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
GTATTTTCA
Found at i:49081697 original size:302 final size:296
Alignment explanation
Indices: 49081093--49081749 Score: 781
Period size: 302 Copynumber: 2.2 Consensus size: 296
49081083 TGATGCTTTT
49081093 ATTTCTG-TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
49081157 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACAC
* *
49081222 ATTGAGGTATTTTCAATATCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
131 ACTGAGGTATTGTCAATATCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * *
49081287 TCAAGACACGTTGAGGTATTTTCAATTTCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATT
196 TCAACACACGCTGAGCTATTTTCAATTTCTG-TCAATTTA------TAAAAAATCAACTCATATT
* **
49081352 GCGAGAAATGAGTTGAGCCTCAAGACACGTTAAAGTATTTTCA
254 ACGAGAAATGAGTTGAGCCTCAAGACACACTAAAGTATTTTCA
*
49081395 ATTTCTGTTTTC-AAAATTCAACTGATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* * *
49081459 TAATTTCAATTTCTGTTTTCAAAATTCAACTGATATTGCGAGAAATGAGTTGAGCCTCAAGACAT
66 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACAC
* * *
49081524 GCTGGGGTATTGTCAAT-TTTGA-TCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
131 ACTGAGGTATTGTCAATATCT-ACT-TTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
49081587 GAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTTCTG-C-CTTTCA-AAAAAATCAACTCATA
191 GAGCC-T--CAACACACGCTGAGCTATTTTCAATTTCTGTCAATTT-ATAAAAAATCAACTCATA
** * * * *
49081648 TTACGAGAGGTGAGTTGAGCTTCAGATTACACACTGAGGTATTTTTTCA
252 TTACGAGAAATGAGTTGAGCCTCA-A-GACACACTAAAGTA--TTTTCA
* * * * **
49081697 ATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 ATTTCT-GTTTTC-AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
49081750 GGGTCACATG
Statistics
Matches: 306, Mismatches: 32, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
298 35 0.11
299 1 0.00
300 9 0.03
301 3 0.01
302 149 0.49
303 9 0.03
304 3 0.01
305 72 0.24
306 1 0.00
307 23 0.08
308 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (296 bp):
ATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACAC
ACTGAGGTATTGTCAATATCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAACACACGCTGAGCTATTTTCAATTTCTGTCAATTTATAAAAAATCAACTCATATTACGAGAA
ATGAGTTGAGCCTCAAGACACACTAAAGTATTTTCA
Found at i:49081699 original size:79 final size:79
Alignment explanation
Indices: 49081318--49082612 Score: 453
Period size: 79 Copynumber: 16.2 Consensus size: 79
49081308 TCAATTTCTG
* ** * **
49081318 TTCAATTTATGTTTTTC---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--AC
1 TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTCAC
** * *
49081378 ACGTTAAAGTA-TT
66 ACACTGAGGTATTT
* * ** * **
49081391 TTCAATTTCTG-TTTTC---AAAATTCAACTGATATTGCGAGAAATGAGTTGAGCCTCAAG--AC
1 TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTCAC
** *
49081450 ACGTTGAGGTA-AT
66 ACACTGAGGTATTT
* * ** * **
49081463 TTCAATTTCTG-TTTTC---AAAATTCAACTGATATTGCGAGAAATGAGTTGAGCCTCAAG--AC
1 TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTCAC
** *
49081522 ATGCTGGGGTA-TT
66 ACACTGAGGTATTT
* * *
49081535 GTCAATTT-TGATCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCT
1 TTCAATTTCTG-TTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCGGGT
* * *
49081598 CACGCGCTGAGCTA-TT
63 CACACACTGAGGTATTT
** * * * *
49081614 TTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCAGATTAC
1 TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTCAC
49081678 ACACTGAGGTATTTT
66 ACACTGAGGTA-TTT
* * * * *
49081693 TTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCAC
1 TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTCAC
**
49081757 A-TGTCGAGGTATTT
66 ACACT-GAGGTATTT
* *
49081771 TCAAAATCTATTTTCAAT-TTCTGTTCATCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
1 T-----TC-AATTTC--TGTT-T-TTCA--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
49081835 GCCTT-GGCTCACACGCTGAGGTA-TT
54 G-CTTCGGGTCACACACTGAGGTATTT
* ** *
49081860 TTCAATTTATGTTCGTC---AAAAATCAACTCATATTGTC-AGAGGTGAGTTGAG-TCTCGGGCC
1 TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTG-CGAGAGGTGAGTTGAGCT-TCGGGTC
* ** *
49081920 ACATACCAAGGT-CTT
64 ACACACTGAGGTATTT
* * * * *
49081935 TTCAAATTCTGTTTTTAATTTCTATTTTTCAAAAAAA--AAATCA-ACT-CATATTGTGAGAGGT
1 TTCAATTTCTG---TT--TTTC-A------AAAAAAATCAACTCATATTGC-GA--GAG-G---T
* *
49081996 GAGTTGAGCCTT-GGCTCACACGCTGAGGTA-TT
47 GAGTTGAG-CTTCGGGTCACACACTGAGGTATTT
** * * *
49082028 TTCAATTTCTGTTCGTC---AAAAATCAACTCATATTGCGAGAGATGAGTTGAG-TCTCGAGCCA
1 TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCT-TCGGGTCA
** * * *
49082089 CATGCCGAAGT-CTT
65 CACACTGAGGTATTT
* * * * *
49082103 TTCAAATTCTATTTTT-AATTTCTATTTTTCAAAAA--AAATCAACTCATAT-TGTGAGAGGTGA
1 TTCAATTTCTGTTTTTCAA-----A------AAAAATCAACTC-A-T-AT-TGCGAGA--GGTGA
* * * *
49082164 GTTGAGCCTCAGGTCACACGCCGAGGTATTT
49 GTTGAGCTTCGGGTCACACACTGAGGTATTT
*** * * *
49082195 TTCAATTTCTGTTTTTTTTTTAAAAAATTAACTCATATTACGAGAGATGAGTTGAGGC-TCGGGT
1 TTCAATTTCTG--TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-GCTTCGGGT
* * *
49082259 CACGCGCCGAGGTATTT
63 CACACACTGAGGTATTT
* * * ***
49082276 TTTAATTTCTATTTTTCAAAAAAAATCAACTCATATTAG-GAGAGGTGAGTTGAGCCTCAAATCA
1 TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATT-GCGAGAGGTGAGTTGAGCTTCGGGTCA
*
49082340 CGCACTGAGGTA-TT
65 CACACTGAGGTATTT
* * *
49082354 TTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGGGTC
1 TTCAATTTCTGTTTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTC
*
49082419 ACACACCGAGGTATTT
64 ACACACTGAGGTATTT
* * *
49082435 TTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
1 TTCAATTTCTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTCA
*
49082500 CACGCTGAGGTA-TT
65 CACACTGAGGTATTT
* * * *
49082514 TTCAATTTTTTTGGCTTTTT---TAAAAATCAACTCATAATT-CGAGAGGTGAGTTAAACTTCGG
1 TTCAA--TTTCT-G-TTTTTCAAAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCTTCGG
* *
49082575 GT-AGCATC-CCGAGCTA-TT
61 GTCA-CA-CACTGAGGTATTT
49082593 TTCAATTTCTTGTTTTTCAA
1 TTCAATTTC-TGTTTTTCAA
49082613 TAAAGAATAA
Statistics
Matches: 956, Mismatches: 153, Indels: 220
0.72 0.12 0.17
Matches are distributed among these distances:
71 2 0.00
72 131 0.14
73 16 0.02
74 2 0.00
75 88 0.09
76 9 0.01
77 81 0.08
78 35 0.04
79 195 0.20
80 119 0.12
81 66 0.07
82 7 0.01
83 16 0.02
84 12 0.01
85 4 0.00
86 10 0.01
87 7 0.01
88 13 0.01
89 10 0.01
90 56 0.06
91 27 0.03
92 11 0.01
93 32 0.03
94 6 0.01
95 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (79 bp):
TTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTCAC
ACACTGAGGTATTT
Done.