Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 31 of 259
Found at i:8927700 original size:37 final size:37
Alignment explanation
Indices: 8927644--8927722 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
8927634 CCGAGCTCTA
* *
8927644 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
8927681 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
8927718 AAGAC
1 AAGAC
8927723 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:8929352 original size:16 final size:17
Alignment explanation
Indices: 8929331--8929363 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8929321 ATGATAGAGC
8929331 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
8929347 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
8929364 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:8938312 original size:15 final size:15
Alignment explanation
Indices: 8938292--8938326 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
8938282 GCAGACAATT
8938292 GTTTTTATTAATAAA
1 GTTTTTATTAATAAA
8938307 GTTTTTATTAATAAA
1 GTTTTTATTAATAAA
8938322 GTTTT
1 GTTTT
8938327 CATCTCTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (15 bp):
GTTTTTATTAATAAA
Found at i:8940070 original size:23 final size:22
Alignment explanation
Indices: 8940018--8940090 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 22
8940008 CCTGATCAGT
** *
8940018 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
8940039 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
8940060 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
8940083 ATACGACA
1 ATACGACA
8940091 TATAAAGTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
21 36 0.82
23 8 0.18
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:8940100 original size:23 final size:23
Alignment explanation
Indices: 8940018--8940104 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
8940008 CCTGATCAGT
*
8940018 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
8940040 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
8940060 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
8940083 ATACGACATATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
8940105 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:8946524 original size:21 final size:21
Alignment explanation
Indices: 8946480--8946520 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8946470 TTTGAAATAA
8946480 AAATAAAATAAAATAAAATTT
1 AAATAAAATAAAATAAAATTT
8946501 AAAT-AAAT-AAATAAACATTT
1 AAATAAAATAAAATAAA-ATTT
8946521 TAAACCTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAAAATAAAATAAAATTT
Found at i:8947927 original size:27 final size:27
Alignment explanation
Indices: 8947897--8947948 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
8947887 GTGTCATGTG
*
8947897 AAATTGAATGGAAAATTATTGTTACAC
1 AAATTGAATGGAAAATTATTATTACAC
* **
8947924 AAATTGAGTGTTAAATTATTATTAC
1 AAATTGAATGGAAAATTATTATTAC
8947949 CTGGGTTGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (27 bp):
AAATTGAATGGAAAATTATTATTACAC
Found at i:8948337 original size:49 final size:51
Alignment explanation
Indices: 8948197--8948342 Score: 172
Period size: 51 Copynumber: 2.9 Consensus size: 51
8948187 TCTATTGTGA
8948197 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTC
* * * * *
8948248 GATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTG-ATAACTTC
* * * * *
8948297 GGTCGCATGGGTAGTACTATGTGTAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATA
8948343 GCTTTGGCTA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
49 35 0.44
50 4 0.05
51 40 0.51
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTC
Found at i:8953314 original size:21 final size:21
Alignment explanation
Indices: 8953268--8953314 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8953258 TAAAATTTTT
*
8953268 TCAAA-TCTAGTCAAGTGAAA
1 TCAAATTCAAGTCAAGTGAAA
*
8953288 TAAAATTCAAGTCAAGTCG-AA
1 TCAAATTCAAGTCAAGT-GAAA
8953309 TCAAAT
1 TCAAAT
8953315 GAAATTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 17 0.77
22 1 0.05
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.26
Consensus pattern (21 bp):
TCAAATTCAAGTCAAGTGAAA
Found at i:8954184 original size:19 final size:19
Alignment explanation
Indices: 8954162--8954228 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
8954152 AAAAATAATT
8954162 TTTTGAATTTTAAAATTTA
1 TTTTGAATTTTAAAATTTA
8954181 TTTTGAATTTTAAAATTTA
1 TTTTGAATTTTAAAATTTA
*
8954200 TTTTGAATTTTTAAAAATTA
1 TTTTGAA-TTTTAAAATTTA
*
8954220 TTTCGAATT
1 TTTTGAATT
8954229 ATTTTGTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 28 0.62
20 17 0.38
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTGAATTTTAAAATTTA
Found at i:8954333 original size:18 final size:18
Alignment explanation
Indices: 8954310--8954349 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
8954300 CACTAATTCG
8954310 TTATTTGAAC-TATTCAAA
1 TTATTTG-ACTTATTCAAA
8954328 TTATTTGACTTATTCAAA
1 TTATTTGACTTATTCAAA
8954346 TTAT
1 TTAT
8954350 AAAATTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (18 bp):
TTATTTGACTTATTCAAA
Found at i:8958864 original size:15 final size:14
Alignment explanation
Indices: 8958832--8958898 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
8958822 CTAGAAAAGT
8958832 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
8958846 AAATTATTTTCCAAG
1 AAATCATTTTCC-AG
*
8958861 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
8958875 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
8958889 AAAACATTTT
1 AAATCATTTT
8958899 ACCTGCAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
14 34 0.71
15 14 0.29
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:8961342 original size:4 final size:4
Alignment explanation
Indices: 8961333--8961370 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
8961323 TTTCAATAAA
*
8961333 AAAG AAAG AAAAG AAAG AAAG AAAG AAAG AAAA AAAG A
1 AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
8961371 GAAAAGGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8961694 original size:21 final size:21
Alignment explanation
Indices: 8961652--8961694 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
8961642 AAGGTGAGAC
*
8961652 AAAAAAATAATAGAAAATGAA
1 AAAAAAATAATAGAAAAGGAA
8961673 AAAAAAATAATA-ATAAAGGAA
1 AAAAAAATAATAGA-AAAGGAA
8961694 A
1 A
8961695 GAAACTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAAAATAATAGAAAAGGAA
Found at i:8963616 original size:56 final size:56
Alignment explanation
Indices: 8963550--8963663 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
8963540 TTAAATAAAA
* *
8963550 ATAGGTTTTAATAAATAATAATATAAACTGAACCGAACAAATCCAAAGTTAAATTT
1 ATAGATTTTAATAAATAATAATATAAACTGAACCGAACAAATCCAAAATTAAATTT
8963606 ATAGATTTTAATAAATAATAATATAAACTGAACCGAACAAATCCAAAATTAAATTT
1 ATAGATTTTAATAAATAATAATATAAACTGAACCGAACAAATCCAAAATTAAATTT
8963662 AT
1 AT
8963664 CTCATCGACC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.31
Consensus pattern (56 bp):
ATAGATTTTAATAAATAATAATATAAACTGAACCGAACAAATCCAAAATTAAATTT
Found at i:8964878 original size:29 final size:29
Alignment explanation
Indices: 8964836--8964909 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
8964826 AAAATATATT
8964836 AAAATATATATAAATTTATAAATATT-ATAA
1 AAAATATATATAAA-TTATAAA-ATTAATAA
*
8964866 AAAATCTA-ATAAATTATAAAATTAATAA
1 AAAATATATATAAATTATAAAATTAATAA
*
8964894 AAAGATATTTA-AAATT
1 AAA-ATATATATAAATT
8964910 TTATAAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 3 0.08
28 14 0.37
29 13 0.34
30 8 0.21
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAATATATATAAATTATAAAATTAATAA
Found at i:8964906 original size:28 final size:28
Alignment explanation
Indices: 8964827--8964916 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 28
8964817 TTTTTATAAA
*
8964827 AAATA-TATTAAAATATATATAAATTTAT
1 AAATATTA-TAAAAAATATATAAATTTAT
*
8964855 AAATATTATAAAAAATCTAATAAA-TTAT
1 AAATATTATAAAAAATAT-ATAAATTTAT
*
8964883 AAA-ATTAATAAAAAGATATTTAAAATTTTAT
1 AAATATT-ATAAAAA-ATATAT-AAA-TTTAT
8964914 AAA
1 AAA
8964917 AACGTATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 3 0.06
28 28 0.55
29 13 0.25
31 7 0.14
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (28 bp):
AAATATTATAAAAAATATATAAATTTAT
Found at i:8965988 original size:19 final size:17
Alignment explanation
Indices: 8965966--8966026 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 17
8965956 AATTACAAAA
8965966 AAAATTCAAAATCATTTT
1 AAAATTCAAAAT-ATTTT
8965984 CAAAAATTCAAAATAACTTTT
1 --AAAATTCAAAAT-A-TTTT
*
8966005 AAAAGTCAAAATATTTAT
1 AAAATTCAAAATATTT-T
8966023 AAAA
1 AAAA
8966027 ATTCCAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 11 0.30
20 13 0.35
21 4 0.11
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATTCAAAATATTTT
Found at i:8966027 original size:19 final size:19
Alignment explanation
Indices: 8965965--8966035 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
8965955 AAATTACAAA
*
8965965 AAAAATTCAAAATCATTTT
1 AAAAATTCAAAATAATTTT
8965984 CAAAAATTCAAAATAACTTTT
1 -AAAAATTCAAAATAA-TTTT
*
8966005 -AAAAGTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
8966023 AAAAATTCCAAAT
1 AAAAATTCAAAAT
8966036 TTTATATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.07
18 2 0.05
19 21 0.48
20 14 0.32
21 4 0.09
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:8966754 original size:29 final size:28
Alignment explanation
Indices: 8966714--8966809 Score: 76
Period size: 29 Copynumber: 3.4 Consensus size: 28
8966704 TATTTAACCT
8966714 TAATATTT-ATAAGCTTTTATAATTTTTAA
1 TAAT-TTTAATAAG-TTTTATAATTTTTAA
* *
8966743 TAATTTTAATAAGTATATATAAATTTTAA
1 TAATTTTAATAAGT-TTTATAATTTTTAA
*
8966772 T-ATTTTGAAT---TTTTATAATTTTTTTA
1 TAATTTT-AATAAGTTTTATAA-TTTTTAA
8966798 TAATTTTTAATA
1 TAA-TTTTAATA
8966810 TTTTTATGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
25 6 0.11
26 7 0.13
27 4 0.07
28 13 0.24
29 25 0.45
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (28 bp):
TAATTTTAATAAGTTTTATAATTTTTAA
Found at i:8966794 original size:9 final size:9
Alignment explanation
Indices: 8966714--8966816 Score: 52
Period size: 9 Copynumber: 11.1 Consensus size: 9
8966704 TATTTAACCT
*
8966714 TAATATTTA
1 TAATTTTTA
*
8966723 TAAGCTTTTA
1 TAA-TTTTTA
8966733 TAATTTTTAA
1 TAATTTTT-A
*
8966743 TAATTTTAA
1 TAATTTTTA
* *
8966752 TAAGTATATA
1 TAA-TTTTTA
*
8966762 TAA-ATTT-
1 TAATTTTTA
8966769 TAATATTTT-
1 TAAT-TTTTA
*
8966778 GAATTTTTA
1 TAATTTTTA
8966787 TAATTTTTTTA
1 TAA--TTTTTA
8966798 TAATTTTTA
1 TAATTTTTA
8966807 -ATATTTTTA
1 TA-ATTTTTA
8966816 T
1 T
8966817 GAAACAATAT
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
7 3 0.04
8 8 0.11
9 32 0.44
10 21 0.29
11 9 0.12
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (9 bp):
TAATTTTTA
Found at i:8966797 original size:11 final size:11
Alignment explanation
Indices: 8966781--8966805 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8966771 ATATTTTGAA
8966781 TTTTTATAATT
1 TTTTTATAATT
8966792 TTTTTATAATT
1 TTTTTATAATT
8966803 TTT
1 TTT
8966806 AATATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:8966808 original size:18 final size:18
Alignment explanation
Indices: 8966760--8966816 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
8966750 AATAAGTATA
*
8966760 TATAAATTTTAATATTTT
1 TATAATTTTTAATATTTT
* * *
8966778 GA-ATTTTTATAATTTTTT
1 TATAATTTT-TAATATTTT
8966796 TATAATTTTTAATATTTT
1 TATAATTTTTAATATTTT
8966814 TAT
1 TAT
8966817 GAAACAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATAATTTTTAATATTTT
Found at i:8977702 original size:13 final size:13
Alignment explanation
Indices: 8977684--8977722 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
8977674 ATTGAGTTTA
*
8977684 TTATTTTTTTGTT
1 TTATTTTTTTATT
8977697 TTA-TTTTTTATT
1 TTATTTTTTTATT
8977709 TTATTTTTTTATT
1 TTATTTTTTTATT
8977722 T
1 T
8977723 ATCTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (13 bp):
TTATTTTTTTATT
Found at i:8977705 original size:12 final size:11
Alignment explanation
Indices: 8977688--8977765 Score: 57
Period size: 12 Copynumber: 6.4 Consensus size: 11
8977678 AGTTTATTAT
8977688 TTTTTTGTTTTA
1 TTTTTT-TTTTA
8977700 TTTTTTATTTTA
1 TTTTTT-TTTTA
8977712 TTTTTTTATTTA
1 TTTTTTT-TTTA
*
8977724 TCTTTCTTTTTAA
1 T-TTT-TTTTTTA
*
8977737 TTTTGTTTTAGTTG
1 TTTT-TTTT--TTA
*
8977751 CTTTTTTTTTA
1 TTTTTTTTTTA
8977762 TTTT
1 TTTT
8977766 CTTAAACTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
11 6 0.11
12 29 0.55
13 11 0.21
14 7 0.13
ACGTcount: A:0.12, C:0.04, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:8977709 original size:20 final size:20
Alignment explanation
Indices: 8977684--8977722 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8977674 ATTGAGTTTA
8977684 TTATTTT-TTTGTTTTATTTT
1 TTATTTTATTT-TTTTATTTT
8977704 TTATTTTATTTTTTTATTT
1 TTATTTTATTTTTTTATTT
8977723 ATCTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (20 bp):
TTATTTTATTTTTTTATTTT
Found at i:8982820 original size:5 final size:5
Alignment explanation
Indices: 8982798--8982841 Score: 63
Period size: 5 Copynumber: 8.6 Consensus size: 5
8982788 TTGTGTGTTC
8982798 TTTAT CTTTAT CTTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT -TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
8982842 TCACATTAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
4 4 0.11
5 22 0.59
6 11 0.30
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:8982824 original size:9 final size:9
Alignment explanation
Indices: 8982810--8982840 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
8982800 TATCTTTATC
8982810 TTTATTTTA
1 TTTATTTTA
8982819 TTTATTTTA
1 TTTATTTTA
8982828 TTTTATTTTA
1 -TTTATTTTA
8982838 TTT
1 TTT
8982841 TTCACATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:8983543 original size:2 final size:2
Alignment explanation
Indices: 8983536--8983591 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
8983526 TTATTGTAAA
8983536 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
8983578 AG AG A- AA AG AG AG A
1 AG AG AG AG AG AG AG A
8983592 AGAAAGAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8984608 original size:44 final size:44
Alignment explanation
Indices: 8984541--8984743 Score: 215
Period size: 44 Copynumber: 4.7 Consensus size: 44
8984531 TATGTGTTAT
* *
8984541 CGTGTAAGACCACGTCTGTGACGTTGGTATCAACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAACTTATGATTTA
* **
8984585 CGTGTAAGACCACGTCTGGGACGTTGGTATTGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAACTTATGATTTA
*** *
8984629 CGTGTAAGACCACGTCTGGGACGTTGGCAT-TGTTTTTGAGTTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAACTTATGA-TTTA
8984672 -GTGTAAGACC-CTGTCTGGGACAG-TGGCATCAA--TATTCGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAACTTA-T-GATTTA
*
8984714 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
8984744 TGTACGAGCT
Statistics
Matches: 137, Mismatches: 12, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
41 4 0.03
42 27 0.20
43 32 0.23
44 74 0.54
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCAACTTATGATTTA
Found at i:8988419 original size:20 final size:20
Alignment explanation
Indices: 8988396--8988439 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
8988386 AGAGGCATCC
* *
8988396 AAGTGCAAACAGAGTCACCG
1 AAGTGCAAACAAAGTCACCA
8988416 AAGTGCAAACAAAGTCACCA
1 AAGTGCAAACAAAGTCACCA
8988436 AAGT
1 AAGT
8988440 ACAATCTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.11
Consensus pattern (20 bp):
AAGTGCAAACAAAGTCACCA
Found at i:8990461 original size:22 final size:22
Alignment explanation
Indices: 8990436--8990479 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8990426 ACAAGAACTC
*
8990436 AAAGAATGAAAAGAAGATTACT
1 AAAGAATCAAAAGAAGATTACT
*
8990458 AAAGAATCAAAGGAAGATTACT
1 AAAGAATCAAAAGAAGATTACT
8990480 TAACTCGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAGAATCAAAAGAAGATTACT
Found at i:9002027 original size:25 final size:25
Alignment explanation
Indices: 9001991--9002096 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 25
9001981 TATCTTGTGT
**
9001991 GAGCATATTGATTTATAGCTCGTAA
1 GAGCATACCGATTTATAGCTCGTAA
* * *
9002016 GAGCATACTGA-TTACAGCTCGTGA
1 GAGCATACCGATTTATAGCTCGTAA
* * *
9002040 GAGAATACCGATCTATAGCTCG-AGC
1 GAGCATACCGATTTATAGCTCGTA-A
* * * *
9002065 GAGCATACCAATTCATAGCTTGTAT
1 GAGCATACCGATTTATAGCTCGTAA
9002090 GAGCATA
1 GAGCATA
9002097 TATGTACAGG
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
24 20 0.32
25 42 0.67
26 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (25 bp):
GAGCATACCGATTTATAGCTCGTAA
Found at i:9002042 original size:24 final size:24
Alignment explanation
Indices: 9001991--9002072 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 24
9001981 TATCTTGTGT
* *
9001991 GAGCATATTGATTTATAGCTCGTAA
1 GAGCATACTGA-TTATAGCTCGTGA
*
9002016 GAGCATACTGATTACAGCTCGTGA
1 GAGCATACTGATTATAGCTCGTGA
* * * *
9002040 GAGAATACCGATCTATAGCTCGAGC
1 GAGCATACTGAT-TATAGCTCGTGA
9002065 GAGCATAC
1 GAGCATAC
9002073 CAATTCATAG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 21 0.45
25 26 0.55
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (24 bp):
GAGCATACTGATTATAGCTCGTGA
Found at i:9011031 original size:35 final size:35
Alignment explanation
Indices: 9010992--9011062 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
9010982 GTTTTAGTTG
*
9010992 ATAGAGCACACAAGGCTGAAGAACTCAGCAAAGAA
1 ATAGAGCACACAAGGCTGAAAAACTCAGCAAAGAA
*
9011027 ATAGAGCACACAAGGTTGAAAAACTCAGCAAAGAA
1 ATAGAGCACACAAGGCTGAAAAACTCAGCAAAGAA
9011062 A
1 A
9011063 AAAGAAAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.51, C:0.18, G:0.21, T:0.10
Consensus pattern (35 bp):
ATAGAGCACACAAGGCTGAAAAACTCAGCAAAGAA
Found at i:9029221 original size:14 final size:14
Alignment explanation
Indices: 9029202--9029231 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9029192 TGGCTCAAAG
*
9029202 AAAATAAATTATTA
1 AAAATAAAATATTA
9029216 AAAATAAAATATTA
1 AAAATAAAATATTA
9029230 AA
1 AA
9029232 CATTATAAAA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATAAAATATTA
Found at i:9029696 original size:12 final size:11
Alignment explanation
Indices: 9029666--9029695 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
9029656 TGGAATTTTT
9029666 ATATTTTTAAA
1 ATATTTTTAAA
9029677 ATATTTTTAAA
1 ATATTTTTAAA
9029688 ATATTTTT
1 ATATTTTT
9029696 TTATTTTTAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:9030390 original size:17 final size:17
Alignment explanation
Indices: 9030368--9030400 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9030358 ACTGAGCTTA
9030368 ATATATTATGTCAAAAT
1 ATATATTATGTCAAAAT
9030385 ATATATTATGTCAAAA
1 ATATATTATGTCAAAA
9030401 GTATGATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
ATATATTATGTCAAAAT
Found at i:9033603 original size:16 final size:17
Alignment explanation
Indices: 9033576--9033612 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
9033566 ATCAGCTAAC
*
9033576 TATTATAAAATTAACTA
1 TATTATAAAATTAACAA
9033593 TATTA-AAAATTAACAA
1 TATTATAAAATTAACAA
9033609 TATT
1 TATT
9033613 TCTTGTAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TATTATAAAATTAACAA
Found at i:9036512 original size:28 final size:28
Alignment explanation
Indices: 9036480--9036556 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
9036470 TTTAATTAGT
*
9036480 TTTTTAAAATTTTAAAAATTTAAAAATTA
1 TTTTTAAAATTTTAAAAATTTAAAAA-CA
* *
9036509 TTTTTAAAA-ATTAAAAAGTATAAAAACA
1 TTTTTAAAATTTTAAAAA-TTTAAAAACA
*
9036537 TTTTT-AAGTTTTAGAAAATT
1 TTTTTAAAATTTTA-AAAATT
9036557 AATTAAATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (28 bp):
TTTTTAAAATTTTAAAAATTTAAAAACA
Found at i:9037483 original size:18 final size:18
Alignment explanation
Indices: 9037460--9037496 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9037450 ATTATTACCT
* *
9037460 TTTAAAATTAAATAAAAA
1 TTTAAAAATAAAAAAAAA
9037478 TTTAAAAATAAAAAAAAA
1 TTTAAAAATAAAAAAAAA
9037496 T
1 T
9037497 AAATTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TTTAAAAATAAAAAAAAA
Found at i:9037537 original size:30 final size:30
Alignment explanation
Indices: 9037478--9037573 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 30
9037468 TAAATAAAAA
9037478 TTTAAAAA--TAAAAAAAA-A-TA-AATTGT
1 TTTAAAAATTTAAAAAAAATATTATAATT-T
*
9037504 TTT-ATAATTTAAATAAAAATATTATAATTT
1 TTTAAAAATTTAAA-AAAAATATTATAATTT
* *
9037534 TTTAAAAATTTAAAAATAATATTTTAATTTT
1 TTTAAAAATTTAAAAAAAATATTATAA-TTT
9037565 TTTAAAAAT
1 TTTAAAAAT
9037574 GAAAATAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
25 3 0.05
26 3 0.05
27 4 0.07
28 5 0.09
29 1 0.02
30 17 0.29
31 25 0.43
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (30 bp):
TTTAAAAATTTAAAAAAAATATTATAATTT
Found at i:9037544 original size:31 final size:32
Alignment explanation
Indices: 9037509--9037586 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 32
9037499 ATTGTTTTAT
9037509 AATTTAAATAAAAATATTATAA-TTTTTTAAA
1 AATTTAAATAAAAATATTATAATTTTTTTAAA
* *
9037540 AATTTAAA-AATAATATTTTAATTTTTTTAAA
1 AATTTAAATAAAAATATTATAATTTTTTTAAA
**
9037571 AATGAAAATAAAAATA
1 AATTTAAATAAAAATA
9037587 AACAGTCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 11 0.28
31 23 0.57
32 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (32 bp):
AATTTAAATAAAAATATTATAATTTTTTTAAA
Found at i:9037760 original size:33 final size:31
Alignment explanation
Indices: 9037715--9037793 Score: 106
Period size: 33 Copynumber: 2.5 Consensus size: 31
9037705 TTGTTAAAAT
* *
9037715 AATTTTTA-TTTTTATTTTTTTGAATTTTAA
1 AATTTTTATTTTTTATTTTTTTAAAATTTAA
9037745 AGATTTTTTATTTTTTATTTTTTTAAAATTTAA
1 A-A-TTTTTATTTTTTATTTTTTTAAAATTTAA
*
9037778 AATTTTCATTTTTTAT
1 AATTTTTATTTTTTAT
9037794 GTTCTTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.02
31 14 0.33
32 7 0.16
33 21 0.49
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (31 bp):
AATTTTTATTTTTTATTTTTTTAAAATTTAA
Found at i:9038030 original size:7 final size:7
Alignment explanation
Indices: 9038022--9038062 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
9038012 ATAAAGACTG
*
9038022 AATTTTG
1 AATTTTT
9038029 AATTTTT
1 AATTTTT
9038036 AATTTTT
1 AATTTTT
9038043 AATTTTT
1 AATTTTT
9038050 AATTTTT
1 AATTTTT
9038057 AATTTT
1 AATTTT
9038063 AAAAGAGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:9044168 original size:9 final size:9
Alignment explanation
Indices: 9044154--9044195 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
9044144 AATAAGTATA
9044154 AAATTAACC
1 AAATTAACC
*
9044163 AAATTAATC
1 AAATTAACC
*
9044172 GAATTAACC
1 AAATTAACC
*
9044181 GAATTAACC
1 AAATTAACC
9044190 AAATTA
1 AAATTA
9044196 TTTGTATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (9 bp):
AAATTAACC
Found at i:9049083 original size:13 final size:13
Alignment explanation
Indices: 9049065--9049092 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9049055 AAACAACAGT
9049065 ACATATCTACATA
1 ACATATCTACATA
9049078 ACATATCTACATA
1 ACATATCTACATA
9049091 AC
1 AC
9049093 TTTAGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (13 bp):
ACATATCTACATA
Found at i:9049661 original size:24 final size:21
Alignment explanation
Indices: 9049607--9049650 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9049597 AGTCCTTAAT
9049607 TTAATTTTTTGTTGTTTTTAG
1 TTAATTTTTTGTTGTTTTTAG
9049628 TTAATTTTTTGTTGTTTTTAG
1 TTAATTTTTTGTTGTTTTTAG
9049649 TT
1 TT
9049651 CTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.73
Consensus pattern (21 bp):
TTAATTTTTTGTTGTTTTTAG
Found at i:9049806 original size:29 final size:30
Alignment explanation
Indices: 9049762--9049833 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
9049752 ATAAACATTT
9049762 AATTAGTTTTTAAAAATTATAAAAATA-AAAA
1 AATTA-TTTTTAAAAATTA-AAAAATATAAAA
*
9049793 AATTATTTTTAAAAATTAAAAAGTATAAAA
1 AATTATTTTTAAAAATTAAAAAATATAAAA
9049823 AA-TATTTTTAA
1 AATTATTTTTAA
9049834 GTTTTAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 15 0.38
30 19 0.49
31 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
AATTATTTTTAAAAATTAAAAAATATAAAA
Found at i:9050083 original size:20 final size:19
Alignment explanation
Indices: 9050046--9050090 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
9050036 AAACTTGGAG
9050046 GGCCAAAAAAAATCATT-A
1 GGCCAAAAAAAATCATTAA
*
9050064 GGCCTAAAAAGAATCAATTAA
1 GGCC-AAAAAAAATC-ATTAA
9050085 GGCCAA
1 GGCCAA
9050091 CTCTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.17
19 9 0.39
20 5 0.22
21 5 0.22
ACGTcount: A:0.51, C:0.18, G:0.16, T:0.16
Consensus pattern (19 bp):
GGCCAAAAAAAATCATTAA
Found at i:9050286 original size:28 final size:29
Alignment explanation
Indices: 9050249--9050322 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
9050239 ATTATAATTT
* * *
9050249 AGACTTATTTGAT-TTTTTAATAATATAG
1 AGACTAATTTGATCTATTTAATAATAGAG
*
9050277 GGACTAATTTGATCTATTTAATAATAGAG
1 AGACTAATTTGATCTATTTAATAATAGAG
9050306 AGA-TAATTTGATCTATT
1 AGACTAATTTGATCTATT
9050323 CCCTATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.62
29 15 0.38
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (29 bp):
AGACTAATTTGATCTATTTAATAATAGAG
Found at i:9050675 original size:17 final size:16
Alignment explanation
Indices: 9050653--9050687 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
9050643 TATAATGTTT
*
9050653 TATATTATGTTATTTTA
1 TATATTAT-TTAATTTA
9050670 TATATTATTTAATTTA
1 TATATTATTTAATTTA
9050686 TA
1 TA
9050688 ACACATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TATATTATTTAATTTA
Found at i:9051661 original size:26 final size:28
Alignment explanation
Indices: 9051619--9051672 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
9051609 AGCTCGAAAC
9051619 AAAAAAATTATTTAAAAA-TA-AAAAAT
1 AAAAAAATTATTTAAAAATTATAAAAAT
*
9051645 AAAAATATT-TTTAAAAAATTATAAAAAT
1 AAAAAAATTATTT-AAAAATTATAAAAAT
9051673 CGATTCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 13 0.54
27 2 0.08
28 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAAAATTATTTAAAAATTATAAAAAT
Found at i:9060812 original size:23 final size:21
Alignment explanation
Indices: 9060786--9060849 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 21
9060776 CTTCTACCTT
*
9060786 ATACAACTTGGTTTTCAAATTGG
1 ATACAACTT--TTTACAAATTGG
9060809 ATACAAC--TTTACAAATTGG
1 ATACAACTTTTTACAAATTGG
9060828 ATACAAC--TTTACAAATTGG
1 ATACAACTTTTTACAAATTGG
9060847 ATA
1 ATA
9060850 AAGCTTATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 33 0.82
23 7 0.17
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (21 bp):
ATACAACTTTTTACAAATTGG
Found at i:9060825 original size:19 final size:19
Alignment explanation
Indices: 9060801--9060849 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
9060791 ACTTGGTTTT
9060801 CAAATTGGATACAACTTTA
1 CAAATTGGATACAACTTTA
9060820 CAAATTGGATACAACTTTA
1 CAAATTGGATACAACTTTA
9060839 CAAATTGGATA
1 CAAATTGGATA
9060850 AAGCTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (19 bp):
CAAATTGGATACAACTTTA
Found at i:9061415 original size:20 final size:18
Alignment explanation
Indices: 9061379--9061421 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
9061369 CATTTTGTAT
* *
9061379 GAAAAAAAAAAGTGAAAG
1 GAAAAAAAAAAGGGAAAA
9061397 GAAAAAGAAAAAGAGGAAAA
1 GAAAAA-AAAAAG-GGAAAA
9061417 GAAAA
1 GAAAA
9061422 TGTTACCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 6 0.29
20 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (18 bp):
GAAAAAAAAAAGGGAAAA
Found at i:9062767 original size:18 final size:18
Alignment explanation
Indices: 9062744--9062785 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
9062734 GTCATGTTAA
9062744 TTAAT-ATTTATATACTTT
1 TTAATAATTTATATA-TTT
*
9062762 TTAATAAATTTATTTATTT
1 TTAAT-AATTTATATATTT
9062781 TTAAT
1 TTAAT
9062786 TTAAGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAATAATTTATATATTT
Found at i:9063719 original size:16 final size:16
Alignment explanation
Indices: 9063698--9063730 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9063688 TAAATATATT
9063698 AAACGTACAAATTCAA
1 AAACGTACAAATTCAA
9063714 AAACGTACAAATTCAA
1 AAACGTACAAATTCAA
9063730 A
1 A
9063731 CCCTGCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (16 bp):
AAACGTACAAATTCAA
Found at i:9064458 original size:49 final size:50
Alignment explanation
Indices: 9064405--9064507 Score: 190
Period size: 49 Copynumber: 2.1 Consensus size: 50
9064395 TTATTATACT
*
9064405 TATTATTAAATTTTTAAAAATCATTATAAATATTGTAATGTTAT-TGCAA
1 TATTATTAAATTTTTAAAAATCATTATAAATATTGCAATGTTATATGCAA
9064454 TATTATTAAATTTTTAAAAATCATTATAAATATTGCAATGTTATATGCAA
1 TATTATTAAATTTTTAAAAATCATTATAAATATTGCAATGTTATATGCAA
9064504 TATT
1 TATT
9064508 CATTTTCTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 43 0.83
50 9 0.17
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (50 bp):
TATTATTAAATTTTTAAAAATCATTATAAATATTGCAATGTTATATGCAA
Found at i:9068478 original size:17 final size:16
Alignment explanation
Indices: 9068452--9068487 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9068442 CCAAGAATTT
*
9068452 GATAGAGTTTTGAGAG
1 GATAGAGTTTTAAGAG
9068468 GATATGAGTTTTAAGAG
1 GATA-GAGTTTTAAGAG
9068485 GAT
1 GAT
9068488 GATAGACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
GATAGAGTTTTAAGAG
Found at i:9068706 original size:50 final size:50
Alignment explanation
Indices: 9068631--9068726 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
9068621 GGACAGCTGC
9068631 CATGCATTTACTCCTAGCCAGCATATTTCATTTTCATTTTCCTTTAATCT
1 CATGCATTTACTCCTAGCCAGCATATTTCATTTTCATTTTCCTTTAATCT
*
9068681 CATGCATTTACTCCTAGCCAGCATATTTCATTTTTATTTTCCTTTA
1 CATGCATTTACTCCTAGCCAGCATATTTCATTTTCATTTTCCTTTA
9068727 CAGGTAGTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (50 bp):
CATGCATTTACTCCTAGCCAGCATATTTCATTTTCATTTTCCTTTAATCT
Found at i:9072430 original size:14 final size:14
Alignment explanation
Indices: 9072408--9072446 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
9072398 AAACAGTTAA
*
9072408 TTAAATTATTTTAT
1 TTAATTTATTTTAT
*
9072422 TTAATTTATATTAT
1 TTAATTTATTTTAT
9072436 TTAATTATATT
1 TTAATT-TATT
9072447 GTACATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTTATTTTAT
Found at i:9076179 original size:78 final size:78
Alignment explanation
Indices: 9076087--9076239 Score: 279
Period size: 78 Copynumber: 2.0 Consensus size: 78
9076077 ATATGAAAAA
*
9076087 ACCAAAATCAAATCGAATTCACTCCTAATATAGAGAAGATCGATGCCTATGATGTTCTTTTTGTA
1 ACCAAAATCAAATCGAATTCACTCCTAATATAGAGAAGACCGATGCCTATGATGTTCTTTTTGTA
9076152 TTTCACTATGATT
66 TTTCACTATGATT
* *
9076165 ACCAAAATCAAATCGAATTCACTCCTAATATAGAGAAGGCCGATGCCTGTGATGTTCTTTTTGTA
1 ACCAAAATCAAATCGAATTCACTCCTAATATAGAGAAGACCGATGCCTATGATGTTCTTTTTGTA
9076230 TTTCACTATG
66 TTTCACTATG
9076240 GTTAAGTTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (78 bp):
ACCAAAATCAAATCGAATTCACTCCTAATATAGAGAAGACCGATGCCTATGATGTTCTTTTTGTA
TTTCACTATGATT
Found at i:9079999 original size:9 final size:9
Alignment explanation
Indices: 9079987--9080019 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9079977 TTTTTTTGTC
9079987 TTTA-TTTA
1 TTTATTTTA
9079995 TTTTATTTTA
1 -TTTATTTTA
9080005 TTTATTTTA
1 TTTATTTTA
9080014 TTTATT
1 TTTATT
9080020 ATTAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:9080006 original size:14 final size:14
Alignment explanation
Indices: 9079987--9080016 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9079977 TTTTTTTGTC
9079987 TTTATTTATTTTAT
1 TTTATTTATTTTAT
9080001 TTTATTTATTTTAT
1 TTTATTTATTTTAT
9080015 TT
1 TT
9080017 ATTATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:9080050 original size:48 final size:47
Alignment explanation
Indices: 9080007--9080113 Score: 137
Period size: 47 Copynumber: 2.2 Consensus size: 47
9079997 TTATTTTATT
*
9080007 TATTTTATTTAT-TATTAATTTTAAAAATTTTGAAATATATATTTTGAAA
1 TATTTTATTAATATA-T-ATTTTAAAAATTTT-AAATATATATTTTGAAA
**
9080056 TATTTTATTAATATATATTTTTTAAATTTTAAATATATATTTTGAAA
1 TATTTTATTAATATATATTTTAAAAATTTTAAATATATATTTTGAAA
9080103 TTATTTT-TTAA
1 -TATTTTATTAA
9080114 AATTTTAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
47 21 0.40
48 18 0.34
49 12 0.23
50 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (47 bp):
TATTTTATTAATATATATTTTAAAAATTTTAAATATATATTTTGAAA
Found at i:9080052 original size:14 final size:13
Alignment explanation
Indices: 9080033--9080114 Score: 54
Period size: 13 Copynumber: 6.6 Consensus size: 13
9080023 AATTTTAAAA
9080033 ATTTTGAAATATAT
1 ATTTT-AAATATAT
9080047 ATTTTGAAATAT-T
1 ATTTT-AAATATAT
9080060 -TTATT-AATATAT
1 ATT-TTAAATATAT
*
9080072 ATTTT---T-TAA
1 ATTTTAAATATAT
9080081 ATTTTAAATATAT
1 ATTTTAAATATAT
9080094 ATTTTGAAAT-TAT
1 ATTTT-AAATATAT
*
9080107 TTTTTAAA
1 ATTTTAAA
9080115 ATTTTAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
9 7 0.12
10 1 0.02
11 5 0.09
12 9 0.16
13 19 0.33
14 16 0.28
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTTTAAATATAT
Found at i:9080061 original size:24 final size:23
Alignment explanation
Indices: 9080024--9080109 Score: 95
Period size: 24 Copynumber: 3.7 Consensus size: 23
9080014 TTTATTATTA
*
9080024 ATTTT-AAAAATTTTGAAATATAT
1 ATTTTGAAATATTTT-AAATATAT
9080047 ATTTTGAAATATTTTATTAATATAT
1 ATTTTGAAATATTTTA--AATATAT
**
9080072 ATTTTTTAA-ATTTTAAATATAT
1 ATTTTGAAATATTTTAAATATAT
9080094 ATTTTGAAATTATTTT
1 ATTTTGAAA-TATTTT
9080110 TTAAAATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
22 14 0.26
23 6 0.11
24 19 0.36
25 14 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (23 bp):
ATTTTGAAATATTTTAAATATAT
Found at i:9080074 original size:25 final size:25
Alignment explanation
Indices: 9080040--9080113 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
9080030 AAAATTTTGA
9080040 AATATATATTTTGAAATATTTTATT
1 AATATATATTTTGAAATATTTTATT
**
9080065 AATATATATTTTTTAA-ATTTTA--
1 AATATATATTTTGAAATATTTTATT
9080087 AATATATATTTTGAAATTATTTT-TT
1 AATATATATTTTGAAA-TATTTTATT
9080112 AA
1 AA
9080114 AATTTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 14 0.34
24 11 0.27
25 16 0.39
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
AATATATATTTTGAAATATTTTATT
Found at i:9080128 original size:22 final size:21
Alignment explanation
Indices: 9080094--9080148 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
9080084 TTAAATATAT
*
9080094 ATTTTGAA-ATTATTTTTTAAA
1 ATTTTAAATATTATTTTTT-AA
*
9080115 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTATTTTTTAA
9080136 ATATTTAAATATT
1 AT-TTTAAATATT
9080149 TTAAACTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:9080141 original size:33 final size:32
Alignment explanation
Indices: 9080070--9080131 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
9080060 TTATTAATAT
9080070 ATATTTTTTAAATTTTAAATATATATTTTGAA
1 ATATTTTTTAAATTTTAAATATATATTTTGAA
9080102 ATTATTTTTTAAAATTTTAAATAT-TATTTT
1 A-TATTTTTT-AAATTTTAAATATATATTTT
9080132 TTTAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
32 1 0.04
33 14 0.50
34 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (32 bp):
ATATTTTTTAAATTTTAAATATATATTTTGAA
Found at i:9080472 original size:16 final size:16
Alignment explanation
Indices: 9080451--9080498 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
9080441 ATTAGAAAAT
9080451 AAAAAATATTTATTAA
1 AAAAAATATTTATTAA
*
9080467 AAAAAATTTATTTGTTAA
1 AAAAAA--TATTTATTAA
9080485 AAAATAA-ATTTATT
1 AAAA-AATATTTATT
9080499 TAAATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 12 0.44
18 13 0.48
19 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
AAAAAATATTTATTAA
Found at i:9081006 original size:212 final size:210
Alignment explanation
Indices: 9080588--9081190 Score: 960
Period size: 212 Copynumber: 2.9 Consensus size: 210
9080578 GTGATAACAC
* *
9080588 AAAATAATATGTTATTTGAAAAATAATTATTATTGTAATGAGATACATGTTCTATTAGGTATAAG
1 AAAACAATATGTTATTTG-AAAATAACTATTATTGTAATGAGATACATGTTCTATTAGGTATAAG
** *
9080653 TATTTAAATTTTTGTTTTTGTAATGTGATACATG---CGTGTATATATATATAATCATATTAGTG
65 TATTTAAATTTTTGTTTTTGTAATGTGATACATGATAAATCTATATATATATAATCATATTAGTG
* * *
9080715 AATCTACTAATACATATTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAA
130 AATCTACTAATACATACTTCATCCAGATAAAGTATGCATTATTAAAATTAAACTAAAATATTAAA
*
9080780 TAAGAAATAAAATTAT
195 TAAAAAATAAAATTAT
*
9080796 AAAACAATATGTTATTTAGAAAATAACTATTATTGTAATGAGATACATGTTCTATTAAGTATAAG
1 AAAACAATATGTTATTT-GAAAATAACTATTATTGTAATGAGATACATGTTCTATTAGGTATAAG
*
9080861 TATTTAAATTTTTGTTTTTGTAATGTGATACATGAATAAATCTATATATATGTAATCATATTAGT
65 TATTTAAATTTTTGTTTTTGTAATGTGATACATG-ATAAATCTATATATATATAATCATATTAGT
*
9080926 GAATCTATTAATACATACTTCATCCAGATAAAGTATGCATTATTAAAATTAAACTAAAATATTAA
129 GAATCTACTAATACATACTTCATCCAGATAAAGTATGCATTATTAAAATTAAACTAAAATATTAA
9080991 ATAAAAAATAAAATTAT
194 ATAAAAAATAAAATTAT
* *
9081008 AAAACAATATGTTATTTGGAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAGT
1 AAAACAATATGTTATTTGAAAATAACTATTATTGTAATGAGATACATGTTCTATTAGGTATAAGT
* * *
9081073 ATTTAAATTTTAGTTTTTGTAATATGATACATGAGTAAATATCTATATATATATAATCATATTAA
66 ATTTAAATTTTTGTTTTTGTAATGTGATACATGA-T-AA-ATCTATATATATATAATCATATTAG
* *
9081138 TGAATTTGCTAATACATACTTCATCCAGATAAAGTATGCATTATTAAAATTAA
128 TGAATCTACTAATACATACTTCATCCAGATAAAGTATGCATTATTAAAATTAA
9081191 TAGTTTGTTT
Statistics
Matches: 365, Mismatches: 22, Indels: 11
0.92 0.06 0.03
Matches are distributed among these distances:
208 94 0.26
209 1 0.00
210 1 0.00
211 77 0.21
212 119 0.33
213 73 0.20
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (210 bp):
AAAACAATATGTTATTTGAAAATAACTATTATTGTAATGAGATACATGTTCTATTAGGTATAAGT
ATTTAAATTTTTGTTTTTGTAATGTGATACATGATAAATCTATATATATATAATCATATTAGTGA
ATCTACTAATACATACTTCATCCAGATAAAGTATGCATTATTAAAATTAAACTAAAATATTAAAT
AAAAAATAAAATTAT
Found at i:9086272 original size:3 final size:3
Alignment explanation
Indices: 9086266--9086307 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
9086256 TGCTACTGCC
* *
9086266 TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TTT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
9086308 CTGTTAAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:9087791 original size:47 final size:45
Alignment explanation
Indices: 9087681--9087987 Score: 266
Period size: 47 Copynumber: 6.6 Consensus size: 45
9087671 GCGTGCTGAC
* * *
9087681 GCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGGCCGAT
* *
9087725 GCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGCCGAT
* *
9087772 GCATGTCCCAAACATGTCTTAAACTGGCACTTATCTCTGT--GCCGAT
1 GCATGTCCCAGACATGTCTTACACTGG--C-TATCTCTGTAGGCCGAT
* * *
9087818 GTCATGTCCCAGGCATGGTCTTACACTGGCTATCAT-AGTATGGCTGAT
1 G-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA-GGCCGAT
* * ** * *
9087866 GCATATCCCAGACATGTCTTACACTAGCCCTCGTCTGGATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTAGGCCGAT
* * *
9087912 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGCCGAA
1 G-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGGCCGAT
9087960 GCATGTCCCAGACATGTCTTACACTGGC
1 GCATGTCCCAGACATGTCTTACACTGGC
9087988 GCACAAATCA
Statistics
Matches: 214, Mismatches: 32, Indels: 32
0.77 0.12 0.12
Matches are distributed among these distances:
43 5 0.02
44 26 0.12
45 6 0.03
46 44 0.21
47 82 0.38
48 39 0.18
49 3 0.01
50 9 0.04
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCCGAT
Found at i:9087875 original size:94 final size:93
Alignment explanation
Indices: 9087624--9087984 Score: 362
Period size: 94 Copynumber: 3.9 Consensus size: 93
9087614 TGGGATATAC
* * * * * *
9087624 TGCCAATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATA-TACGCGTGCTGACGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTC
*
9087688 CCAGACATGTCTTACACTAGCAC-AACTCT-
63 CCAGACATGTCTTACACTAGCACTATCTCTG
* * *
9087717 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGT
* * *
9087778 CCCAAACATGTCTTAAACTGGCACTTATCTCTG
62 CCCAGACATGTCTTACACTAGCAC-TATCTCTG
* * * *
9087811 TGCCGATGTCATGTCCCAGGCATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATATCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
*
9087876 GACATGTCTTACACTAGC-C-CTCGTCTGG
66 GACATGTCTTACACTAGCACTATC-TCT-G
* * * *
9087904 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCC
9087969 AGACATGTCTTACACT
65 AGACATGTCTTACACT
9087985 GGCGCACAAA
Statistics
Matches: 223, Mismatches: 30, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
91 34 0.15
92 19 0.09
93 29 0.13
94 120 0.54
95 20 0.09
96 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTATCTCTG
Found at i:9087886 original size:141 final size:140
Alignment explanation
Indices: 9087629--9087987 Score: 345
Period size: 141 Copynumber: 2.6 Consensus size: 140
9087619 TATACTGCCA
* * * * * * * *
9087629 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATATACGCGTGCTGACGCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGGTCTTAAACTGGCACTCATA-ATGTG-GCCGAAGCATGTCCCAGAC
* * * * * * * * *
9087694 ATGTCTTACACTAGC-A-CA-ACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTAT
64 ATGTCTTACACTGGCTATCATAGT-ATGGCTGATGCATATCCCAGACACGTCTTACACTAGCCAT
9087756 C-TCTGTCGAGGCCG
128 CGTCTG--GAGGCCG
* * * * *
9087770 ATG-CATGTCCCAAACAT-GTCTTAAACTGGCACTTAT-CTCTGTGCCGATGTCATGTCCCAGGC
1 ATGCCATGTCCCAAACATGGTCTTAAACTGGCACTCATAATGTG-GCCGAAG-CATGTCCCAGAC
* *
9087832 ATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATATCCCAGACATGTCTTACACTAGCCCT
64 AT-GTCTTACACTGGCTATCATAGTATGGCTGATGCATATCCCAGACACGTCTTACACTAGCCAT
*
9087897 CGTCTGGATGCCG
128 CGTCTGGAGGCCG
* * *
9087910 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGACAT
1 ATGCCATGTCCCAAACATGGTCTTAAACTGGCACTCATAATGTGGCCGAAGCATGTCCCAGACAT
9087975 GTCTTACACTGGC
66 GTCTTACACTGGC
9087988 GCACAAATCA
Statistics
Matches: 177, Mismatches: 32, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
137 7 0.04
138 13 0.07
139 27 0.15
140 36 0.20
141 63 0.36
142 28 0.16
143 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (140 bp):
ATGCCATGTCCCAAACATGGTCTTAAACTGGCACTCATAATGTGGCCGAAGCATGTCCCAGACAT
GTCTTACACTGGCTATCATAGTATGGCTGATGCATATCCCAGACACGTCTTACACTAGCCATCGT
CTGGAGGCCG
Found at i:9089297 original size:30 final size:31
Alignment explanation
Indices: 9089231--9089299 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
9089221 ACTATTAGTC
* *
9089231 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
9089262 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
9089291 GGGTGACTG
1 -AGTGACTG
9089300 AAATGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 13 0.39
31 15 0.45
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:9091082 original size:25 final size:25
Alignment explanation
Indices: 9091048--9091103 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
9091038 GGTCACACGA
9091048 TCGTGTCACATACCCGTGTGCTAGG
1 TCGTGTCACATACCCGTGTGCTAGG
9091073 TCGTGTCACATACCCGTGTGCTAGG
1 TCGTGTCACATACCCGTGTGCTAGG
9091098 TCGTGT
1 TCGTGT
9091104 AACTCTATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (25 bp):
TCGTGTCACATACCCGTGTGCTAGG
Found at i:9097584 original size:21 final size:22
Alignment explanation
Indices: 9097558--9097614 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
9097548 GTAAGGAGTA
9097558 GCACACGGCCGTGTG-GCAGAG
1 GCACACGGCCGTGTGTGCAGAG
** *
9097579 GCACACACCCATGTGGTGCAGAG
1 GCACACGGCCGTGT-GTGCAGAG
9097602 G--CACGGCCGTGTG
1 GCACACGGCCGTGTG
9097615 ATCAGGTCGT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
20 1 0.04
21 19 0.68
22 1 0.04
23 7 0.25
ACGTcount: A:0.19, C:0.30, G:0.39, T:0.12
Consensus pattern (22 bp):
GCACACGGCCGTGTGTGCAGAG
Found at i:9102954 original size:19 final size:21
Alignment explanation
Indices: 9102895--9102956 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
9102885 ATTGGGTGGA
*
9102895 TCAACTCTTATGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTGT
*
9102916 TCAACTCTTACGAACTTCTGT
1 TCAACTCTTACGAGCTTCTGT
* *
9102937 TTAGCT-TT-CGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTGT
9102956 T
1 T
9102957 AACGATGTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 23 0.64
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (21 bp):
TCAACTCTTACGAGCTTCTGT
Found at i:9104088 original size:5 final size:5
Alignment explanation
Indices: 9104073--9104102 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
9104063 GTTAATCCAA
9104073 ATTTGT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTT-T ATTTT ATTTT ATTTT ATTTT ATTT
9104103 CCTATTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:9113261 original size:8 final size:8
Alignment explanation
Indices: 9113248--9113273 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9113238 GCCAAATATC
9113248 TTTTATTA
1 TTTTATTA
9113256 TTTTATTA
1 TTTTATTA
9113264 TTTTATTA
1 TTTTATTA
9113272 TT
1 TT
9113274 CTGAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:9118843 original size:22 final size:22
Alignment explanation
Indices: 9118817--9118859 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
9118807 TAGTTATTTG
9118817 TTTTTTAGTTTAATTTAATTTAA
1 TTTTTTA-TTTAATTTAATTTAA
*
9118840 TTTTTTATTTTATTTAATTT
1 TTTTTTATTTAATTTAATTT
9118860 TTCACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTTATTTAATTTAATTTAA
Found at i:9118849 original size:17 final size:17
Alignment explanation
Indices: 9118829--9118861 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9118819 TTTTAGTTTA
9118829 ATTTAATTTAATTTTTT
1 ATTTAATTTAATTTTTT
*
9118846 ATTTTATTTAATTTTT
1 ATTTAATTTAATTTTT
9118862 CACATAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTAATTTAATTTTTT
Found at i:9122664 original size:23 final size:23
Alignment explanation
Indices: 9122638--9122683 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9122628 AGTACAAAAG
9122638 TTAATTTGGTTGCTGTTAAGTTC
1 TTAATTTGGTTGCTGTTAAGTTC
9122661 TTAATTTGGTTGCTGTTAAGTTC
1 TTAATTTGGTTGCTGTTAAGTTC
9122684 ACATGATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.22, T:0.52
Consensus pattern (23 bp):
TTAATTTGGTTGCTGTTAAGTTC
Found at i:9122767 original size:21 final size:23
Alignment explanation
Indices: 9122721--9122771 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
9122711 AAGTTTTTTA
9122721 ATTTTAAAAATTTGTAAGTAATT
1 ATTTTAAAAATTTGTAAGTAATT
* *
9122744 ATTTTAAAATTTTGTTA-T-ATT
1 ATTTTAAAAATTTGTAAGTAATT
9122765 ATTTTAA
1 ATTTTAA
9122772 CTTATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
22 1 0.04
23 15 0.58
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
ATTTTAAAAATTTGTAAGTAATT
Found at i:9124842 original size:26 final size:26
Alignment explanation
Indices: 9124806--9124857 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9124796 CTACAAGAAG
9124806 AAGAAACCCTTCAATTAGGAAGCACT
1 AAGAAACCCTTCAATTAGGAAGCACT
9124832 AAGAAACCCTTCAATTAGGAAGCACT
1 AAGAAACCCTTCAATTAGGAAGCACT
9124858 GAAACAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.19
Consensus pattern (26 bp):
AAGAAACCCTTCAATTAGGAAGCACT
Found at i:9127925 original size:25 final size:25
Alignment explanation
Indices: 9127897--9127950 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
9127887 ATATAGGTTC
9127897 AAAAAATGAAGTTAAACAAAAAAAT
1 AAAAAATGAAGTTAAACAAAAAAAT
* * *
9127922 AAAAAATGAGGTTGAATAAAAAAAT
1 AAAAAATGAAGTTAAACAAAAAAAT
9127947 AAAA
1 AAAA
9127951 CCTGTTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (25 bp):
AAAAAATGAAGTTAAACAAAAAAAT
Found at i:9128835 original size:29 final size:29
Alignment explanation
Indices: 9128796--9128873 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
9128786 ACAATCACTA
**
9128796 TTCTCTCATTTTCTGTCAAAAAATTTTTC
1 TTCTCTCATTTTCTCCCAAAAAATTTTTC
* *
9128825 TTCTCTCATTTTCTCCCAACATATTTTTC
1 TTCTCTCATTTTCTCCCAAAAAATTTTTC
*
9128854 TTCTTTCATTTTCTCTCCAA
1 TTCTCTCATTTTCTC-CCAA
9128874 CATAACATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 39 0.91
30 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.01, T:0.53
Consensus pattern (29 bp):
TTCTCTCATTTTCTCCCAAAAAATTTTTC
Found at i:9142888 original size:16 final size:16
Alignment explanation
Indices: 9142877--9142936 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
9142867 TTAATTACTT
9142877 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
9142893 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
* *
9142908 TAAATATTAGATTAAATT
1 T-AATATTAAATT-AATA
9142926 TAATATTAAAT
1 TAATATTAAAT
9142937 CTTATTAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 6 0.18
16 13 0.39
17 11 0.33
18 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:9142949 original size:59 final size:58
Alignment explanation
Indices: 9142880--9142995 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 58
9142870 ATTACTTTAA
* *
9142880 TATTAAATTAATATAATATTTATC-A-AGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATCAAGAGATAAA-ATTAAATTAAA-TTAA-ATTAAATCT
9142939 TATTAAATTAATAGAATATTTATCTAAGAGATAAAATTAAATTAAATTAAATTAAAT
1 TATTAAATTAATAGAATATTTATC-AAGAGATAAAATTAAATTAAATTAAATTAAAT
9142996 TTAAGATTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
59 30 0.58
60 4 0.08
61 11 0.21
62 7 0.13
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATATTTATCAAGAGATAAAATTAAATTAAATTAAATTAAATCT
Found at i:9142982 original size:5 final size:5
Alignment explanation
Indices: 9142972--9143006 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
9142962 CTAAGAGATA
9142972 AAATT AAATT AAATT AAATT AAATTT AAGATT AAA
1 AAATT AAATT AAATT AAATT AAA-TT AA-ATT AAA
9143007 ATAATCACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 19 0.68
6 8 0.29
7 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:9142992 original size:15 final size:17
Alignment explanation
Indices: 9142967--9143030 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 17
9142957 TTTATCTAAG
*
9142967 AGATAAAATTAAA-TTA
1 AGATTAAATTAAATTTA
9142983 A-ATTAAATTAAATTTA
1 AGATTAAATTAAATTTA
*
9142999 AGATTAAAATAATCACTTTA
1 AGATTAAATTAA--A-TTTA
*
9143019 ATATTAAATTAA
1 AGATTAAATTAA
9143031 TAAAATACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 10 0.26
16 5 0.13
17 9 0.23
19 1 0.03
20 14 0.36
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AGATTAAATTAAATTTA
Found at i:9144649 original size:15 final size:14
Alignment explanation
Indices: 9144629--9144667 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
9144619 ATGCATGCAC
9144629 AATATGAAAGATAGA
1 AATATGAAAGATA-A
*
9144644 AATATGAAAGGTAA
1 AATATGAAAGATAA
9144658 AATAGTGAAA
1 AATA-TGAAA
9144668 TGTGAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (14 bp):
AATATGAAAGATAA
Found at i:9147460 original size:30 final size:30
Alignment explanation
Indices: 9147419--9147479 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9147409 GGAAAAGGGG
9147419 AAGTTACGGAATAGTCCCTAAACTTCTGCA
1 AAGTTACGGAATAGTCCCTAAACTTCTGCA
* *
9147449 AAGTTATGGAATAGTCCCTGAACTTCTGCA
1 AAGTTACGGAATAGTCCCTAAACTTCTGCA
9147479 A
1 A
9147480 CTACTACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (30 bp):
AAGTTACGGAATAGTCCCTAAACTTCTGCA
Found at i:9174286 original size:15 final size:16
Alignment explanation
Indices: 9174266--9174299 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9174256 GCAGGTATCG
*
9174266 ATACTTTGTGA-AAGT
1 ATACTTTGTAATAAGT
9174281 ATACTTTGTAATAAGT
1 ATACTTTGTAATAAGT
9174297 ATA
1 ATA
9174300 GATACTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (16 bp):
ATACTTTGTAATAAGT
Found at i:9174306 original size:20 final size:20
Alignment explanation
Indices: 9174281--9174338 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
9174271 TTGTGAAAGT
9174281 ATACTTTGT-AATAAGTATAG
1 ATACTTTGTGAA-AAGTATAG
* *
9174301 ATACTTGGTGCAAAGTATAG
1 ATACTTTGTGAAAAGTATAG
* *
9174321 ATATTTTGTGCAAAGTAT
1 ATACTTTGTGAAAAGTAT
9174339 CGGCACCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (20 bp):
ATACTTTGTGAAAAGTATAG
Found at i:9176363 original size:6 final size:6
Alignment explanation
Indices: 9176352--9176378 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9176342 TTACAAGCAT
9176352 CATTTA CATTTA CATTTA CATTTA CAT
1 CATTTA CATTTA CATTTA CATTTA CAT
9176379 GCCAATATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (6 bp):
CATTTA
Found at i:9178801 original size:47 final size:49
Alignment explanation
Indices: 9178401--9178810 Score: 220
Period size: 49 Copynumber: 8.6 Consensus size: 49
9178391 TATGTGTGCT
* * * *
9178401 AGTGTAAGA-CATGTCTGGGATAT-GCATCGGC--CACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCA-ATGATGATAGCC
* * * *
9178447 AGTGTAAGACCATGTCTGGGACATGGCATCAGTA-TT-GA-GACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTCAATGATGATAGCC
* * * *
9178495 AGTGTAAGA-CATGTTTGGGACAT-GCATCG-GTCTCGA-GACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TCAATGATGAT-AGCC
* * * *
9178541 AGTGTAAGA-CATGTCTGGGAGAT-GAATC-AGC-T--ATGA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTCAATGATGAT-AGCC
* * * ** * * *
9178585 AATGTAAGACCATGTCTGGGACATGGAATTGGCAC-GGATATG-TAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCG-ACTTCA-ATGATGATAGCC
* * * * * **
9178635 AGTGTAAGACCATGTCTGGGATATGGCGTCGGCCTCGATGATGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCAATGATGATAGCC
* * **
9178684 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCTTCAATGATGATATTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCAATGATGATAGCC
*
9178733 AGTGTAAGACCATGTCTGGGACATGACATCGACTT-AA-GAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCAATGATGAT-AGCC
*
9178780 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
9178811 GTATTCTACC
Statistics
Matches: 289, Mismatches: 49, Indels: 51
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.05
45 16 0.06
46 53 0.18
47 61 0.21
48 28 0.10
49 86 0.30
50 25 0.09
51 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCAATGATGATAGCC
Found at i:9193902 original size:13 final size:13
Alignment explanation
Indices: 9193884--9193910 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9193874 GAAGTAATTG
9193884 CACACGGGCGTGT
1 CACACGGGCGTGT
9193897 CACACGGGCGTGT
1 CACACGGGCGTGT
9193910 C
1 C
9193911 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:9195733 original size:30 final size:30
Alignment explanation
Indices: 9195692--9195749 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9195682 AAATTTACAT
* * *
9195692 CTTTGGTAAAATGACCATTTTGCTCCTAGA
1 CTTTGGCAAAATAACCATTTTGCCCCTAGA
9195722 CTTTGGCAAAATAACCATTTTGCCCCTA
1 CTTTGGCAAAATAACCATTTTGCCCCTA
9195750 TGCCCTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTGCCCCTAGA
Found at i:9195986 original size:36 final size:36
Alignment explanation
Indices: 9195946--9196021 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
9195936 CAAGATTCAT
* *
9195946 TTTCTTCGATAAAAACTCAGCAAACAACACAAATCC
1 TTTCTTCCATAAAAACCCAGCAAACAACACAAATCC
9195982 TTTCTTCCATAAAAACCCAGCAAACAACACAAATCC
1 TTTCTTCCATAAAAACCCAGCAAACAACACAAATCC
9196018 TTTC
1 TTTC
9196022 ATGGCAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.42, C:0.30, G:0.04, T:0.24
Consensus pattern (36 bp):
TTTCTTCCATAAAAACCCAGCAAACAACACAAATCC
Found at i:9200177 original size:43 final size:42
Alignment explanation
Indices: 9200109--9200269 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 42
9200099 TGGCATCGAC
* *
9200109 TTACGTGTAAGACCACGTCTTGGACGTTGGCATCGTATTTTAT
1 TTAC-TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAT
9200152 TTACCTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATT
1 TTA-CTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA-T
*
9200196 TTA-TGTAAGACC-CTGTCTGGCACAG-TGGCATCGATATTTGA-
1 TTACTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGAT
9200237 TTACATGTAAGACCACGT-TGGGGACGTTGGCAT
1 TTAC-TGTAAGACCACGTCT-GGGACGTTGGCAT
9200270 TGTACAAGCC
Statistics
Matches: 104, Mismatches: 4, Indels: 20
0.81 0.03 0.16
Matches are distributed among these distances:
41 4 0.04
42 27 0.26
43 67 0.64
44 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAT
Found at i:9201050 original size:22 final size:22
Alignment explanation
Indices: 9201007--9201050 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9200997 TATATCTTGG
* *
9201007 TATGATTTTGGTTTAGATTTGA
1 TATGATTTTGGTTGAGAATTGA
9201029 TATGA-TTTGGTTGATGAATTGA
1 TATGATTTTGGTTGA-GAATTGA
9201051 GACTGAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (22 bp):
TATGATTTTGGTTGAGAATTGA
Found at i:9210655 original size:42 final size:41
Alignment explanation
Indices: 9210540--9210694 Score: 132
Period size: 42 Copynumber: 3.6 Consensus size: 41
9210530 GTTGGTATTA
* * *
9210540 ATCTGAATTATCGTGTAAGACCGTGTCTAGGACACAGGCATCG
1 ATCTGAATT-TCGTATAAGACCATGTCTGGGACAC-GGCATCG
* * *
9210583 ATTTGAAATTTACGTTTAAGACTATGTCTGGGACATCGGCATCG
1 ATCTG-AATTT-CGTATAAGACCATGTCTGGGACA-CGGCATCG
* *
9210627 TATCTG-ATTTCGTATAAGACCCTGTCTGGGACAGAGGCATCG
1 -ATCTGAATTTCGTATAAGACCATGTCTGGGACA-CGGCATCG
* * *
9210669 ATACTGAATTACATGTAAGACCATGT
1 AT-CTGAATTTCGTATAAGACCATGT
9210695 TTGGACGTTG
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 30 0.33
43 24 0.26
44 30 0.33
45 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (41 bp):
ATCTGAATTTCGTATAAGACCATGTCTGGGACACGGCATCG
Found at i:9237343 original size:40 final size:41
Alignment explanation
Indices: 9237288--9237484 Score: 258
Period size: 40 Copynumber: 4.9 Consensus size: 41
9237278 ATTTGAATGA
* *
9237288 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* *
9237328 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
*
9237368 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* * *
9237409 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* * * *
9237449 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTTG
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG
9237485 TAATATCCGG
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
40 139 0.97
41 5 0.03
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (41 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
Found at i:9239296 original size:44 final size:44
Alignment explanation
Indices: 9239247--9239394 Score: 160
Period size: 43 Copynumber: 3.4 Consensus size: 44
9239237 TGGGTTATTG
9239247 TGTAAGACCATGTCTGGGATGTTGGCATCG-ACTTATGATTTACA
1 TGTAAGACCATGTCTGGGATGTTGGCATCGTA-TTATGATTTACA
*** * *
9239291 TGTAAGACCACCACTGGGATGTTGGCATCGTATT-TTATTTACG
1 TGTAAGACCATGTCTGGGATGTTGGCATCGTATTATGATTTACA
* * * * *
9239334 TGTAAGATCATGTGTGGGACGTTGGCGTTGTATTA-GATTT-CA
1 TGTAAGACCATGTCTGGGATGTTGGCATCGTATTATGATTTACA
*
9239376 TGTAAGACCCTGTCTGGGA
1 TGTAAGACCATGTCTGGGA
9239395 CAGTGATCGC
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
42 17 0.20
43 37 0.44
44 29 0.35
45 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGATGTTGGCATCGTATTATGATTTACA
Found at i:9247225 original size:43 final size:42
Alignment explanation
Indices: 9247178--9247288 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
9247168 AATGCCAACA
* * * **
9247178 TCCCAGACCTGGTCTTACATGTAATTCAG-TATCGATGCCTCTG
1 TCCCAGACATGGTCTTACACG-AAATCAGATA-CGATGCCGATG
* *
9247221 TCCCAGACAGGGTCTTATACGAAATCAGATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATG
*
9247263 TCCCAGACATGGTCTTATACGTAAAT
1 TCCCAGACATGGTCTTACACG-AAAT
9247289 TTCAAATCGA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 35 0.60
43 23 0.40
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATG
Found at i:9247323 original size:86 final size:87
Alignment explanation
Indices: 9247178--9247338 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 87
9247168 AATGCCAACA
* * * * * ** *
9247178 TCCCAGACCTGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACGA
1 TCCCAGACATGGTCTTACACGTAATTCAGAATCGATGCATCTGTCCCAAACACAGTCTTACACGA
9247243 -AA-TCAGATACGATGCCGATG
66 TAATTCAGATACGATGCCGATG
* *
9247263 TCCCAGACATGGTCTTATACGTAAATTTCA-AATCGATGCATGTGTCCCAAACACAGTCTTACAC
1 TCCCAGACATGGTCTTACACGT-AA-TTCAGAATCGATGCATCTGTCCCAAACACAGTCTTACAC
9247327 GATAATTCAGAT
64 GATAATTCAGAT
9247339 TAATACCAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 19 0.31
86 31 0.50
87 6 0.10
88 6 0.10
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (87 bp):
TCCCAGACATGGTCTTACACGTAATTCAGAATCGATGCATCTGTCCCAAACACAGTCTTACACGA
TAATTCAGATACGATGCCGATG
Found at i:9247484 original size:8 final size:8
Alignment explanation
Indices: 9247471--9247495 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9247461 CGAAAATGAG
9247471 TCGACTAT
1 TCGACTAT
9247479 TCGACTAT
1 TCGACTAT
9247487 TCGACTAT
1 TCGACTAT
9247495 T
1 T
9247496 TCGGACTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TCGACTAT
Found at i:9254498 original size:42 final size:42
Alignment explanation
Indices: 9254408--9254554 Score: 129
Period size: 42 Copynumber: 3.4 Consensus size: 42
9254398 AATGCCAACA
** * * *
9254408 TCCCAGACCTGGTCTTACATGT-AATTCAGTATCGATGCCTCTG
1 TCCCAGACAAGGTCTTACACGTAAATTCA-AATCGATGCC-GTG
* *
9254451 TCCCAGACAAGGTCTTATACG-AAA-TCAGATACGATGCCGATG
1 TCCCAGACAAGGTCTTACACGTAAATTCAAAT-CGATGCCG-TG
*
9254493 TCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGTG
1 TCCCAGACAAGGTCTTACACGTAAA-TTCAAATCGATGCC-GTG
* *
9254537 TCCCAAACACGGTCTTAC
1 TCCCAGACAAGGTCTTAC
9254555 CCGATAATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.02
42 31 0.36
43 22 0.26
44 25 0.29
45 6 0.07
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
TCCCAGACAAGGTCTTACACGTAAATTCAAATCGATGCCGTG
Found at i:9257486 original size:10 final size:10
Alignment explanation
Indices: 9257446--9257492 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
9257436 TATTGAAACA
*
9257446 TATGTTTTGG
1 TATGATTTGG
9257456 TATGATTTTGG
1 TATGA-TTTGG
*
9257467 TTTAGATTTGG
1 TAT-GATTTGG
9257478 TATGATTTGG
1 TATGATTTGG
9257488 T-TGAT
1 TATGAT
9257493 GGATTGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 12 0.38
11 14 0.44
12 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (10 bp):
TATGATTTGG
Found at i:9259749 original size:27 final size:26
Alignment explanation
Indices: 9259719--9259777 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
9259709 ATTTACTAAA
9259719 ATACCCTTAAGTATG-AAAATTACCATT
1 ATACCCTT-AG-ATGCAAAATTACCATT
*
9259746 ATACCCTTAGGTGCAAAATTACCATT
1 ATACCCTTAGATGCAAAATTACCATT
9259772 ATACCC
1 ATACCC
9259778 CTAGGGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 20 0.67
27 8 0.27
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (26 bp):
ATACCCTTAGATGCAAAATTACCATT
Found at i:9259952 original size:28 final size:28
Alignment explanation
Indices: 9259886--9259971 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 28
9259876 GAGGAAGCAT
* *
9259886 TCTGGTGGCTCTGCCACAAATATATG-A
1 TCTGGTGGCTCTGTCACAAATATCTGTA
9259913 TCTGGTGGCTCTGTCACAAATATCTGTA
1 TCTGGTGGCTCTGTCACAAATATCTGTA
*
9259941 TCTGGTGACTCTGTCAC-AATATCTGT-
1 TCTGGTGGCTCTGTCACAAATATCTGTA
9259967 TCTGG
1 TCTGG
9259972 GAGCCATGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 5 0.09
27 33 0.60
28 17 0.31
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGTCACAAATATCTGTA
Found at i:9262242 original size:28 final size:28
Alignment explanation
Indices: 9262211--9262265 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
9262201 CTAGTGAGAA
9262211 TATATAACATGATAATCATATATTTGAG
1 TATATAACATGATAATCATATATTTGAG
9262239 TATATAACATGATAATCATATATTTGA
1 TATATAACATGATAATCATATATTTGA
9262266 AATCAAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (28 bp):
TATATAACATGATAATCATATATTTGAG
Found at i:9262679 original size:21 final size:22
Alignment explanation
Indices: 9262639--9262679 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9262629 GACGAAGTAC
* *
9262639 AATATTATTTAACTACATAAAT
1 AATATAATTTAACTAAATAAAT
9262661 AATATAATTT-ACTAAATAA
1 AATATAATTTAACTAAATAA
9262680 TTACATGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATAATTTAACTAAATAAAT
Found at i:9271576 original size:5 final size:5
Alignment explanation
Indices: 9271566--9271681 Score: 80
Period size: 5 Copynumber: 22.6 Consensus size: 5
9271556 AAGCTACACC
* *
9271566 TTTTA TTTTA TTTTA TTTTA -TTTA TTACTA TTTGTTA TATTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA -TT-TTA TTTTA TTTTA
* *
9271612 TTTT- TGTTT- TTCTA -ATTA TTTTA TTTTA TTTTA TTTTA TTTTA TTCTTA
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA
*
9271661 TACTTATA TTTTA ATTTA TTT
1 T--TT-TA TTTTA TTTTA TTT
9271682 CAATTTTTCT
Statistics
Matches: 89, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
4 12 0.13
5 59 0.66
6 9 0.10
7 5 0.06
8 4 0.04
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:9271819 original size:26 final size:27
Alignment explanation
Indices: 9271759--9271830 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
9271749 ATTGAGTTTA
* *
9271759 TTATTTTTTTATTTTTTATTATTTATCT
1 TTATTTTTTTATTTATT-TTAGTTATCT
* * *
9271787 TT-CTTTTTAATTTGTTTTAGTT-TCT
1 TTATTTTTTTATTTATTTTAGTTATCT
9271812 TTATTTTTTTATTTATTTT
1 TTATTTTTTTATTTATTTT
9271831 CTTAAACTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
25 5 0.14
26 18 0.50
27 11 0.31
28 2 0.06
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (27 bp):
TTATTTTTTTATTTATTTTAGTTATCT
Found at i:9276900 original size:28 final size:28
Alignment explanation
Indices: 9276869--9276992 Score: 135
Period size: 28 Copynumber: 4.4 Consensus size: 28
9276859 ACATACATGC
*
9276869 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCATTAGGCCCAATCTCATTT
*
9276897 ATATGGCCCATTCGGCCCAAT-TCACGTTCT
1 ATATGGCCCATTAGGCCCAATCTCA--TT-T
* * * * *
9276927 -TATGGGCTATTAGGCGCAATTCACATTC
1 ATATGGCCCATTAGGCCCAA-TCTCATTT
9276955 ATATGGCCCATTAGGCCCAATCTCATTT
1 ATATGGCCCATTAGGCCCAATCTCATTT
9276983 ATATGGCCCA
1 ATATGGCCCA
9276993 AATCACATTA
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
27 3 0.04
28 35 0.45
29 35 0.45
30 2 0.03
31 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTCATTT
Done.