Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 94 of 255
Found at i:29003916 original size:14 final size:14
Alignment explanation
Indices: 29003897--29003930 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
29003887 AAATAATGTA
29003897 TCATCTTCATTAGC
1 TCATCTTCATTAGC
29003911 TCATCTTCATTAGC
1 TCATCTTCATTAGC
29003925 TCATCT
1 TCATCT
29003931 CTCCACTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.06, T:0.44
Consensus pattern (14 bp):
TCATCTTCATTAGC
Found at i:29007875 original size:41 final size:41
Alignment explanation
Indices: 29007830--29007932 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
29007820 GATTCGAATA
* **
29007830 TATATATGACACTTAGTGTGCGAGACCGAGATAGCTTTGGC
1 TATATATGACACTTAGTGTGCGAGAACGAGATAGCTTCAGC
* * *
29007871 TATATACGATACTTAGTGTGCGAGAATGAGATAGCTTCAGC
1 TATATATGACACTTAGTGTGCGAGAACGAGATAGCTTCAGC
* *
29007912 TATGTATGGCACTTAGTGTGC
1 TATATATGACACTTAGTGTGC
29007933 AAGATTATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (41 bp):
TATATATGACACTTAGTGTGCGAGAACGAGATAGCTTCAGC
Found at i:29008006 original size:43 final size:43
Alignment explanation
Indices: 29007943--29008044 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 43
29007933 AAGATTATAA
* *
29007943 TACGTGTAAGACCATAGCTGGGCTATTGGCATCGCTATGAGAT
1 TACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAAT
*
29007986 TTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAAT
1 TACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAAT
* *
29008029 TACATGTATGACCATA
1 TACGTGTAAGACCATA
29008045 TCGGGGACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
TACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAAT
Found at i:29010688 original size:24 final size:24
Alignment explanation
Indices: 29010656--29010704 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
29010646 TCTATTTAGG
29010656 TTATGATCGACATTGCTCTATCTT
1 TTATGATCGACATTGCTCTATCTT
29010680 TTATGATCGACATTGCTCTATCTT
1 TTATGATCGACATTGCTCTATCTT
29010704 T
1 T
29010705 CCCTGGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (24 bp):
TTATGATCGACATTGCTCTATCTT
Found at i:29011335 original size:16 final size:16
Alignment explanation
Indices: 29011314--29011363 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
29011304 CTGTAACTCC
*
29011314 CCAAAAATCCTAAAAT
1 CCAAAAATCCTGAAAT
29011330 CCAAAAAT-CTCGAAAT
1 CCAAAAATCCT-GAAAT
*
29011346 CTAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
29011362 CC
1 CC
29011364 CGAATTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.50, C:0.26, G:0.04, T:0.20
Consensus pattern (16 bp):
CCAAAAATCCTGAAAT
Found at i:29013831 original size:93 final size:93
Alignment explanation
Indices: 29013724--29013892 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 93
29013714 GCCCCTAAGT
* *** *
29013724 GAACTCGAACTCAACTCAATGAGCTT-GGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
29013788 ACGAGCTCGGATTCCTAGTCACATCTCAC
65 ACGAGCTCGGATTCCTAGTCACATCTCAC
* *
29013817 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCGATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
29013882 CGAGTTCGGAT
66 CGAGCTCGGAT
29013893 GCTCAACCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 65 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATTCCTAGTCACATCTCAC
Found at i:29013884 original size:46 final size:45
Alignment explanation
Indices: 29013719--29013891 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
29013709 AACCCGCCCC
* * ***
29013719 TAAGTGAACTCGAACTCAACTCAATGAGCTT-GGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT-CA
* * *
29013765 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTCACATC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTCGCATCA
* *
29013813 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC-A
*
29013858 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29013892 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 3 0.03
46 56 0.54
47 28 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCA
Found at i:29019811 original size:24 final size:24
Alignment explanation
Indices: 29019779--29019831 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
29019769 ATTTTCAGTC
* *
29019779 GGCGCTGCCCCTTCAGCCGGAGCT
1 GGCGCTGCCCCTTCACCCAGAGCT
29019803 GGCGCTGCCCCTTCACCCAGAGCT
1 GGCGCTGCCCCTTCACCCAGAGCT
29019827 GGCGC
1 GGCGC
29019832 ATTACTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.09, C:0.43, G:0.32, T:0.15
Consensus pattern (24 bp):
GGCGCTGCCCCTTCACCCAGAGCT
Found at i:29022412 original size:46 final size:44
Alignment explanation
Indices: 29022269--29022412 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
29022259 CCTGCCCCTA
*
29022269 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
29022316 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAGCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
29022362 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
29022408 AGTGA
1 AGTGA
29022413 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:29023726 original size:16 final size:16
Alignment explanation
Indices: 29023705--29023747 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
29023695 ATGTATCGGC
29023705 AAAAGTCGAAATACCG
1 AAAAGTCGAAATACCG
* *
29023721 AAAAGTCTAAATGCCG
1 AAAAGTCGAAATACCG
*
29023737 AAAAGCCGAAA
1 AAAAGTCGAAA
29023748 GTTCGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAGTCGAAATACCG
Found at i:29029805 original size:46 final size:45
Alignment explanation
Indices: 29029738--29029912 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
29029728 TGTAACCCGC
* * *
29029738 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGTAT
* * *
29029784 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGTA--T
* * *
29029830 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGTAT
*
29029877 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
29029913 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
44 4 0.04
45 4 0.04
46 62 0.58
47 31 0.29
48 2 0.02
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGTAT
Found at i:29029879 original size:93 final size:93
Alignment explanation
Indices: 29029745--29029916 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
29029735 CGCCCATAAG
* * *
29029745 CGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29029810 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
29029838 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
29029902 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
29029917 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29029932 original size:46 final size:44
Alignment explanation
Indices: 29029789--29029932 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
29029779 CGTATCCATA
29029789 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
29029836 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
29029882 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
29029928 AGTGA
1 AGTGA
29029933 CATATCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:29031342 original size:29 final size:28
Alignment explanation
Indices: 29031273--29031358 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
29031263 GCGAGCATGA
*
29031273 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
29031301 ATA-GACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGA-TTGGGCCTAATGGGCC
* * *
29031330 ATATGAATATGATTGGACTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
29031358 A
1 A
29031359 GATACAGGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.04
28 23 0.47
29 22 0.45
30 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:29031675 original size:26 final size:26
Alignment explanation
Indices: 29031642--29031693 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
29031632 ATACATACCT
* *
29031642 AGGGAAAATTG-CCAAAATGCCCCTA
1 AGGGAAAAATGACCAAAATACCCCTA
*
29031667 AGGGCAAAAATGACCAAATTACCCCTA
1 AGGG-AAAAATGACCAAAATACCCCTA
29031694 GGTGTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 6 0.27
27 12 0.55
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (26 bp):
AGGGAAAAATGACCAAAATACCCCTA
Found at i:29046679 original size:18 final size:18
Alignment explanation
Indices: 29046637--29046679 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29046627 GCCCATTCCG
*
29046637 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
29046655 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
29046673 AAGTATG
1 AAGTATG
29046680 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:29047201 original size:27 final size:28
Alignment explanation
Indices: 29047117--29047211 Score: 122
Period size: 27 Copynumber: 3.4 Consensus size: 28
29047107 CATGAGATTG
* * *
29047117 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
29047146 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29047174 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29047201 GCACTGAGTGT
1 GCACTAAGTGT
29047212 ACGGACTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 21 0.34
28 21 0.34
29 19 0.31
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29047225 original size:27 final size:27
Alignment explanation
Indices: 29047145--29047227 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
29047135 TAAATTGTTC
* * *
29047145 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * *
29047173 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTACGACTTGAATATAT
*
29047200 AGCACTGAGTGTACGGACTT-AATATAT
1 AGCACTAAGTGTAC-GACTTGAATATAT
29047227 A
1 A
29047228 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTACGACTTGAATATAT
Found at i:29049792 original size:96 final size:97
Alignment explanation
Indices: 29049596--29049864 Score: 289
Period size: 96 Copynumber: 2.9 Consensus size: 97
29049586 ATGGTGTAAT
29049596 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C--ATCAAGT--CGATGCCATGT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCAAGTGCCGATGCCATGT
*
29049656 CCTCA-ACATGGTCTTACACTGACTATAGAAATCGAG
64 CC-CAGACATGGTCTTACACTGAC--TACAAATCGAG
* * *
29049692 GCCGATGTCATGTCCCAGGCATGGTCTTACACTAACTCTCACATATC-CGTGCCGATGCCATGTC
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGTGCCGATGCCATGTC
* **
29049756 CCAGACATGGTATTACACTGAC-ACATTTCGTA-
65 CCAGACATGGTCTTACACTGACTACAAATCG-AG
* *
29049788 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATCTCAAG-GCCGATG-CATGTCC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGTGCCGATGCCATGTCC
29049848 CAGACAT-GTCTTACACT
66 CAGACATGGTCTTACACT
29049865 AGCTCTCGTC
Statistics
Matches: 151, Mismatches: 14, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
90 9 0.06
91 14 0.09
92 13 0.09
93 2 0.01
94 12 0.08
95 15 0.10
96 48 0.32
97 3 0.02
98 5 0.03
99 30 0.20
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (97 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAAGTGCCGATGCCATGTCC
CAGACATGGTCTTACACTGACTACAAATCGAG
Found at i:29049838 original size:46 final size:49
Alignment explanation
Indices: 29049596--29049958 Score: 278
Period size: 46 Copynumber: 7.7 Consensus size: 49
29049586 ATGGTGTAAT
* *
29049596 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-ATC-CATCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATCAAG
* * * * * *
29049643 GTCGATGCCATGTCCTCA-ACATGGTCTTACACTGACTATAGAAATCGAG
1 GCCGATGCCATGTCC-CAGACATGGTCTTACACTGGCTCTACATATCAAG
* * ** *
29049692 GCCGATGTCATGTCCCAGGCATGGTCTTACACTAACTCTCACATATC-CG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATATCAAG
* * * *
29049741 TGCCGATGCCATGTCCCAGACATGGTATTACACT-G-AC-ACATTTCGTA-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATC-AAG
*
29049788 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAG
* * * *
29049834 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAG
** * * **
29049880 GTTGATGCCATGTCTCAAACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCAAG
*
29049928 GCCGATG-CATGTCCCAAACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
29049959 AGCACACAAA
Statistics
Matches: 257, Mismatches: 42, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
44 9 0.04
45 16 0.06
46 75 0.29
47 57 0.22
48 32 0.12
49 33 0.13
50 35 0.14
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAG
Found at i:29049907 original size:94 final size:92
Alignment explanation
Indices: 29049791--29049961 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
29049781 TTTCGTAGCC
* * *
29049791 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCAAGGCCGATGCATGTCCCAGACA
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-AAGGCCGATGCATGTCCCAAACA
29049854 TGTCTTACACTAGCTCTCGTCTCAATGTT
64 TGTCTTACACTAGCTCTCGTCTCAATGTT
* **
29049883 GATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAAACA
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATAAGGCCGATGCATGTCCCAAACA
29049948 TGTCTTACACTAGC
64 TGTCTTACACTAGC
29049962 ACACAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 4 0.06
93 12 0.17
94 51 0.74
95 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATAAGGCCGATGCATGTCCCAAACATG
TCTTACACTAGCTCTCGTCTCAATGTT
Found at i:29049937 original size:140 final size:141
Alignment explanation
Indices: 29049593--29049958 Score: 372
Period size: 140 Copynumber: 2.6 Consensus size: 141
29049583 CATATGGTGT
29049593 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAA-GT--CGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTC-T-CAT-AATGTGCCGATG-CATG
* * *
29049655 TCCTCAACATGGTCTTACACTGACTATAGAAATCGAGGCCGATGTCATGTCCCAGGCATGGTCTT
61 TCC-CAACAT-GTCTTACACTGACTATACAAATCAAGGCCGATGTCATGTCCCAGACATGGTCTT
29049720 ACACTAACTCTCACATATC
124 ACACTAACTCT-ACATATC
** * * * *
29049739 CGTGCCGATGCCATGTCCCAGACATGGTATTACACTG-ACACAT-TTCGTAGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATAAT-GT-GCCGATGCATGTCC
* **
29049802 CAGACATGTCTTACACTGGCT-TACATCTCAAGGCCGATG-CATGTCCCAGACAT-GTCTTACAC
64 CA-ACATGTCTTACACTGACTATACAAATCAAGGCCGATGTCATGTCCCAGACATGGTCTTACAC
* * *
29049864 TAGCTCT-CGTCTC
128 TAACTCTACATATC
** * *
29049877 AATGTTGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAATGT-GCCGATGCATGTCC
29049942 CAAACATGTCTTACACT
64 C-AACATGTCTTACACT
29049959 AGCACACAAA
Statistics
Matches: 184, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
138 33 0.18
139 1 0.01
140 50 0.27
141 15 0.08
142 19 0.10
143 15 0.08
144 12 0.07
145 6 0.03
146 33 0.18
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (141 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATAATGTGCCGATGCATGTCCCA
ACATGTCTTACACTGACTATACAAATCAAGGCCGATGTCATGTCCCAGACATGGTCTTACACTAA
CTCTACATATC
Found at i:29054397 original size:28 final size:29
Alignment explanation
Indices: 29054365--29054461 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 29
29054355 AATAAGCCCT
*
29054365 CACACTTAGTGCTTA-ATAGTCGAACTCG
1 CACACTTAGTGCTTACATAATCGAACTCG
* * *
29054393 CACACTTAGTGC-TATATAATCAAACTCA
1 CACACTTAGTGCTTACATAATCGAACTCG
* * *
29054421 CACACTTAGTGCTATACA-ATTTGAACCCG
1 CACACTTAGTGCT-TACATAATCGAACTCG
29054450 CACACTTAGTGC
1 CACACTTAGTGC
29054462 CAATCTCATG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 2 0.04
28 34 0.60
29 18 0.32
30 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (29 bp):
CACACTTAGTGCTTACATAATCGAACTCG
Found at i:29061071 original size:47 final size:47
Alignment explanation
Indices: 29061017--29061333 Score: 463
Period size: 47 Copynumber: 6.6 Consensus size: 47
29061007 TATTTGAATA
29061017 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29061064 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29061115 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29061162 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29061213 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
29061260 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
29061307 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
29061334 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
47 155 0.63
51 91 0.37
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:29061089 original size:51 final size:51
Alignment explanation
Indices: 29061029--29061278 Score: 417
Period size: 51 Copynumber: 5.1 Consensus size: 51
29061019 TGTGAAAGTG
29061029 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
29061080 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
29061127 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
29061178 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
29061225 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
29061276 TAT
1 TAT
29061279 GTGACAGGGC
Statistics
Matches: 185, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
47 91 0.49
51 94 0.51
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (51 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:29061130 original size:98 final size:98
Alignment explanation
Indices: 29061017--29061333 Score: 516
Period size: 98 Copynumber: 3.3 Consensus size: 98
29061007 TATTTGAATA
29061017 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
29061082 TATATGTGATAAGGCCTAATGGCCGACGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
29061115 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
29061180 TATATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
29061213 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
29061274 TATATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
* *
29061307 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
29061334 TCCCGAAGGG
Statistics
Matches: 208, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 53 0.25
98 155 0.75
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (98 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATATGTGATAAGGCCTAATGGCCGACGTGATG
Found at i:29061508 original size:37 final size:37
Alignment explanation
Indices: 29061452--29061530 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29061442 CCGAGCTCTA
* *
29061452 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
29061489 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29061526 AAGAC
1 AAGAC
29061531 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:29063442 original size:43 final size:43
Alignment explanation
Indices: 29063394--29063496 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
29063384 TTGGTTTTCA
29063394 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
29063437 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
29063480 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
29063497 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:29063513 original size:29 final size:29
Alignment explanation
Indices: 29063478--29063551 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
29063468 GTTGTGAGAT
* *
29063478 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
29063507 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
29063536 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29063552 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:29064058 original size:40 final size:40
Alignment explanation
Indices: 29063867--29064046 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
29063857 AATGATGTCT
* *
29063867 GGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCC
* * * *
29063907 AGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
* *
29063947 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
* ** * *
29063987 GTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
*
29064027 GGGCTAGGTCCCGAAGAGCA
1 GGGCTAAGTCCCGAAGAGCA
29064047 ATCATGCTGG
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 105 0.88
41 7 0.06
42 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
Found at i:29067552 original size:47 final size:47
Alignment explanation
Indices: 29067498--29067814 Score: 463
Period size: 47 Copynumber: 6.6 Consensus size: 47
29067488 TAGTTGAATA
29067498 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29067545 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29067596 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29067643 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29067694 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
29067741 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
29067788 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
29067815 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
47 155 0.63
51 91 0.37
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:29067570 original size:51 final size:51
Alignment explanation
Indices: 29067510--29067759 Score: 417
Period size: 51 Copynumber: 5.1 Consensus size: 51
29067500 TGTGAAAGTG
29067510 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
29067561 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
29067608 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
29067659 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
29067706 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
29067757 TAT
1 TAT
29067760 GTGACAGGGC
Statistics
Matches: 185, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
47 91 0.49
51 94 0.51
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (51 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:29067611 original size:98 final size:98
Alignment explanation
Indices: 29067498--29067814 Score: 516
Period size: 98 Copynumber: 3.3 Consensus size: 98
29067488 TAGTTGAATA
29067498 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
29067563 TATATGTGATAAGGCCTAATGGCCGACGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
29067596 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
29067661 TATATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
29067694 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
29067755 TATATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
* *
29067788 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
29067815 TCCCGAAGGG
Statistics
Matches: 208, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 53 0.25
98 155 0.75
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (98 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATATGTGATAAGGCCTAATGGCCGACGTGATG
Found at i:29067989 original size:37 final size:37
Alignment explanation
Indices: 29067933--29068011 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29067923 CCGAGCTCTA
* *
29067933 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
29067970 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29068007 AAGAC
1 AAGAC
29068012 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:29070272 original size:80 final size:80
Alignment explanation
Indices: 29070071--29070373 Score: 422
Period size: 79 Copynumber: 3.8 Consensus size: 80
29070061 TTGAATGCTG
* * *
29070071 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
* *
29070132 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGTTACTAAA
*
29070150 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
29070214 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
29070229 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
29070294 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
29070309 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
29070372 TG
65 TG
29070374 AACGAGGAGC
Statistics
Matches: 208, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
78 10 0.05
79 108 0.52
80 90 0.43
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:29070387 original size:40 final size:40
Alignment explanation
Indices: 29070071--29070373 Score: 422
Period size: 40 Copynumber: 7.7 Consensus size: 40
29070061 TTGAATGCTG
* * *
29070071 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
29070110 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29070150 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
29070189 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
29070229 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
29070269 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29070309 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
29070349 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
29070374 AACGAGGAGC
Statistics
Matches: 244, Mismatches: 12, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
39 86 0.35
40 150 0.61
41 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29070403 original size:79 final size:80
Alignment explanation
Indices: 29070123--29070406 Score: 380
Period size: 79 Copynumber: 3.6 Consensus size: 80
29070113 GGACTAAGAT
* * * **
29070123 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGTTACTA
29070187 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* *
29070202 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGTTACTA
29070267 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* *
29070282 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT-AAGTCCGAAGGCATTTGTGCGAATTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGTTACTA
* *
29070346 TAA-CCGGGCTATGTC
66 -AATCCGGGTTAAGTC
** * *
29070361 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAATTCCGAAGG
29070407 TACGTGATTT
Statistics
Matches: 185, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
78 5 0.03
79 101 0.55
80 79 0.43
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGTTACTA
AATCCGGGTTAAGTC
Found at i:29077041 original size:13 final size:13
Alignment explanation
Indices: 29077023--29077047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29077013 CCGAAACTAG
29077023 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
29077036 AAAGAAAAAAAA
1 AAAGAAAAAAAA
29077048 TGCTCATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:29078220 original size:39 final size:40
Alignment explanation
Indices: 29078125--29078346 Score: 257
Period size: 40 Copynumber: 5.7 Consensus size: 40
29078115 TTGAATGCTG
*
29078125 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
29078163 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
29078204 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
29078242 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
29078281 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
29078320 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29078347 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 9, Indels: 21
0.84 0.05 0.11
Matches are distributed among these distances:
37 4 0.02
38 32 0.20
39 51 0.31
40 64 0.39
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:29078268 original size:77 final size:80
Alignment explanation
Indices: 29078125--29078346 Score: 278
Period size: 77 Copynumber: 2.8 Consensus size: 80
29078115 TTGAATGCTG
* * * * *
29078125 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
29078187 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
29078204 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATCCGGG-TAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAACCGGGCTAAGTCCCGAAGGCATT
*
29078265 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
29078281 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
29078346 G
66 G
29078347 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
76 1 0.01
77 40 0.32
78 39 0.31
79 20 0.16
80 25 0.20
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:29082725 original size:27 final size:28
Alignment explanation
Indices: 29082687--29082746 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
29082677 CAGTTAACAT
* *
29082687 GGGTA-TTCCACCTAGACAATAAACACG
1 GGGTAGTTCCACCAAGACAAGAAACACG
*
29082714 GGGTAGTT-CACCAAGATAAGAAACACG
1 GGGTAGTTCCACCAAGACAAGAAACACG
29082741 GGGTAG
1 GGGTAG
29082747 CTTGCTGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (28 bp):
GGGTAGTTCCACCAAGACAAGAAACACG
Found at i:29102685 original size:40 final size:40
Alignment explanation
Indices: 29102601--29102785 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
29102591 TCGAATGATG
* *
29102601 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
29102640 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
29102681 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29102720 TCCGGGTTCAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29102759 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29102786 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29102737 original size:79 final size:81
Alignment explanation
Indices: 29102601--29102783 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
29102591 TCGAATGATG
* * *
29102601 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
29102665 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* ** *
29102680 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTCAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCA
29102742 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
29102760 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29102784 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:29102816 original size:79 final size:79
Alignment explanation
Indices: 29102602--29102818 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 79
29102592 CGAATGATGT
* *
29102602 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGA-TCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAA-ATTCCGAAGGCAT
*
29102664 TTGTGCGAGTTACTAATT
62 TTGTGCGAGTTACTAATA
* * * * *
29102682 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCA-CTAAATCCGGGTTCAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AGCTATATCC-GGTTAAATTCCGAAGGCATTT
29102745 GTGCGAGTTACT-ATAA
64 GTGCGAGTTACTAAT-A
* **
29102761 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATTCCGAAGG
29102819 TACGTGATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.60
80 43 0.38
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATTCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:29109565 original size:25 final size:25
Alignment explanation
Indices: 29109536--29109585 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
29109526 AAAATGAAAC
*
29109536 ATTAAGT-ACACAATATAGTGAAAGT
1 ATTAAGTGA-ACAAAATAGTGAAAGT
29109561 ATTAAGTGAACAAAATAGTGAAAGT
1 ATTAAGTGAACAAAATAGTGAAAGT
29109586 GAAGAGTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (25 bp):
ATTAAGTGAACAAAATAGTGAAAGT
Found at i:29113193 original size:48 final size:48
Alignment explanation
Indices: 29113122--29113221 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
29113112 ATGGGACTCT
**
29113122 TTCTCTGACCGGCTATTTGATGTTTGCAATACGTTATTGTCATTCACA
1 TTCTCTGACAAGCTATTTGATGTTTGCAATACGTTATTGTCATTCACA
*
29113170 TTCTCTGACAAGCTATTTGATGTTTGCAATATGTTATTGTCATTCACA
1 TTCTCTGACAAGCTATTTGATGTTTGCAATACGTTATTGTCATTCACA
29113218 TTCT
1 TTCT
29113222 TACAGCTCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (48 bp):
TTCTCTGACAAGCTATTTGATGTTTGCAATACGTTATTGTCATTCACA
Found at i:29116925 original size:29 final size:29
Alignment explanation
Indices: 29116882--29116970 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 29
29116872 AGACAAGCCA
*
29116882 AAAGTGCAAGCCAAAGTGACGAACAATCC
1 AAAGTACAAGCCAAAGTGACGAACAATCC
* **
29116911 AAAGTACAAGTCAAAGTGGTGAACAATCC
1 AAAGTACAAGCCAAAGTGACGAACAATCC
* * * * * *
29116940 -CAGTGCAAGCCAATGTGGCGGACAGTCC
1 AAAGTACAAGCCAAAGTGACGAACAATCC
29116968 AAA
1 AAA
29116971 TGTGGCAAAC
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 21 0.45
29 26 0.55
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.13
Consensus pattern (29 bp):
AAAGTACAAGCCAAAGTGACGAACAATCC
Found at i:29116999 original size:18 final size:18
Alignment explanation
Indices: 29116951--29117005 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
29116941 AGTGCAAGCC
* *
29116951 AATGTGGCGGACAGTCCA
1 AATGTGGCGAACAATCCA
*
29116969 AATGTGGCAAACAATCCA
1 AATGTGGCGAACAATCCA
* *
29116987 AATGTGGTGAACAAGCCA
1 AATGTGGCGAACAATCCA
29117005 A
1 A
29117006 TGTCACGAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.16
Consensus pattern (18 bp):
AATGTGGCGAACAATCCA
Found at i:29120816 original size:46 final size:46
Alignment explanation
Indices: 29120711--29120831 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 46
29120701 AAGCTGACCC
* * **
29120711 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTTCAATATCT--AGGCCGATA
* *
29120759 CATGTCCCAGACATGTCTTACACTAGCTCTCAATATGT-GGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TCAATATCTAGGCCGATA
29120805 CATGTCCCAGACATG-CTTTACACTAGC
1 CATGTCCCAGACATGTC-TTACACTAGC
29120832 ATACATATCA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
45 1 0.02
46 32 0.49
48 26 0.40
49 6 0.09
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCAATATCTAGGCCGATA
Found at i:29131451 original size:24 final size:22
Alignment explanation
Indices: 29131399--29131452 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
29131389 TTACATTATA
*
29131399 CAATTCAGTTCATATATCATTT
1 CAATTCAATTCATATATCATTT
* *
29131421 CGCATTCAATATCATAGTCTCATTT
1 C-AATTCAAT-TCATA-TATCATTT
29131446 CAATTCA
1 CAATTCA
29131453 TCTTTAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 6 0.24
24 10 0.40
25 8 0.32
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (22 bp):
CAATTCAATTCATATATCATTT
Found at i:29135674 original size:26 final size:26
Alignment explanation
Indices: 29135645--29135707 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
29135635 TTAACCCAAC
29135645 AAAATTTTGAGGATTCT-ACCCTTGGT
1 AAAATTTTGAGGATTCTGACCC-TGGT
* * * *
29135671 AAAATTTTGACGATTTTGTCCCTGTT
1 AAAATTTTGAGGATTCTGACCCTGGT
29135697 AAAATTTTGAG
1 AAAATTTTGAG
29135708 AAAATATGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (26 bp):
AAAATTTTGAGGATTCTGACCCTGGT
Found at i:29137873 original size:40 final size:41
Alignment explanation
Indices: 29137738--29137923 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
29137728 TAATCGAATG
*
29137738 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
29137779 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
29137820 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
29137860 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* * *
29137900 ATATCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
29137924 CTTGTGCGAG
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 61 0.46
41 69 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:29137880 original size:81 final size:82
Alignment explanation
Indices: 29137740--29137893 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
29137730 ATCGAATGAT
* * *
29137740 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
29137805 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
29137822 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
29137885 TTTATGCTA
65 TTTATGCTA
29137894 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:29144026 original size:18 final size:20
Alignment explanation
Indices: 29143987--29144027 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
29143977 GGGAAGTATG
29143987 ATAAAATAAGGAGAATGGGA
1 ATAAAATAAGGAGAATGGGA
*
29144007 ATAAAATAATGA-AA-GGGA
1 ATAAAATAAGGAGAATGGGA
29144025 ATA
1 ATA
29144028 TGATGAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 2 0.10
20 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (20 bp):
ATAAAATAAGGAGAATGGGA
Found at i:29145303 original size:41 final size:41
Alignment explanation
Indices: 29145246--29145400 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
29145236 TAATCGAATG
*
29145246 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
29145287 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
29145328 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
*
29145368 ATATCC-GGCTAAGTCCCGAAGGCATTTATGCTA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
29145401 GTGACCATAC
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
38 1 0.01
39 22 0.21
40 12 0.11
41 69 0.66
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:29148844 original size:25 final size:25
Alignment explanation
Indices: 29148817--29148863 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29148807 GGAGATATCA
29148817 AAAAGCT-TTATGAGCTTCTTGAGT
1 AAAAGCTCTTATGAGCTTCTTGAGT
* *
29148841 AAAATCTCTTATGAGTTTCTTGA
1 AAAAGCTCTTATGAGCTTCTTGA
29148864 TTAGCTCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (25 bp):
AAAAGCTCTTATGAGCTTCTTGAGT
Found at i:29150150 original size:21 final size:22
Alignment explanation
Indices: 29150124--29150172 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
29150114 CTACATCTAG
29150124 GAAAATTTTAGAAATTTTG-TT
1 GAAAATTTTAGAAATTTTGCTT
29150145 GAAAATTTTAGAAATTTTGCTT
1 GAAAATTTTAGAAATTTTGCTT
29150167 -AAAATT
1 GAAAATT
29150173 CTCTTAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (22 bp):
GAAAATTTTAGAAATTTTGCTT
Found at i:29159084 original size:38 final size:38
Alignment explanation
Indices: 29159041--29159154 Score: 174
Period size: 38 Copynumber: 3.0 Consensus size: 38
29159031 TTTCAAATTA
* *
29159041 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
* * *
29159079 ACATGTTTAATCGTGGTATACCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
*
29159117 ACATGTTTAACCGTGGTATATCCATTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
29159155 TTTCCATTCC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:29168590 original size:30 final size:30
Alignment explanation
Indices: 29168531--29168590 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
29168521 TGAGTTGATG
* *
29168531 AGTATATGATGTTTGTGTATGATAGATGGT
1 AGTATATGATGTATGTGTATGATACATGGT
29168561 AGTATATGAATG-ATGTGTAT-ATATCATGGT
1 AGTATATG-ATGTATGTGTATGATA-CATGGT
29168591 TGTGGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 3 0.12
30 20 0.77
31 3 0.12
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.42
Consensus pattern (30 bp):
AGTATATGATGTATGTGTATGATACATGGT
Found at i:29174665 original size:79 final size:82
Alignment explanation
Indices: 29174550--29174734 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
29174540 GCTACTCGTT
* *
29174550 CAAATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29174613 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
29174630 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
29174693 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
29174710 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29174735 CATCATTTGA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:29174734 original size:40 final size:40
Alignment explanation
Indices: 29174531--29174734 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
29174521 CGGAATTTAA
** *
29174531 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
29174571 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29174611 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29174650 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
29174690 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29174730 CCGGA
1 CCGGA
29174735 CATCATTTGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29179602 original size:40 final size:38
Alignment explanation
Indices: 29179558--29179738 Score: 150
Period size: 40 Copynumber: 4.6 Consensus size: 38
29179548 CTACTCGTTG
*
29179558 AAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTC-GGACTTAGCCCGG-TATAGTAACTCGCAC
* * * *
29179598 AAATGCTTTCGGGACTTAACCCGGATTTAGTGACTCGCAC
1 AAATGCCTTC-GGACTTAGCCCGG-TATAGTAACTCGCAC
* * * * *
29179638 CAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCAG
1 AAATGCCTTCGGACTTAGCCCGGTA-TAGTAACTCGCAC
* * * *
29179677 TAATGCCTTCGGATCTTAGTCCGG-ATAGTCACTTAGCAC
1 AAATGCCTTCGGA-CTTAGCCCGGTATAGTAAC-TCGCAC
29179716 AAA-GCCTTCGGGACTTAGCCCGG
1 AAATGCCTTC-GGACTTAGCCCGG
29179739 ACATCATTCG
Statistics
Matches: 112, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
38 21 0.19
39 42 0.38
40 49 0.44
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (38 bp):
AAATGCCTTCGGACTTAGCCCGGTATAGTAACTCGCAC
Found at i:29193089 original size:79 final size:80
Alignment explanation
Indices: 29192991--29193173 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
29192981 TACTCGTTCA
* * *
29192991 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* * *
29193054 ATTTAGTGAC-TCGCACC
64 ATATAGTCACTTAGCA-C
**
29193071 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
29193135 ATAGTCACTTAGCAC
66 ATAGTCACTTAGCAC
*
29193150 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29193174 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTCACTTAGCAC
Found at i:29193173 original size:40 final size:40
Alignment explanation
Indices: 29192989--29193173 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
29192979 GCTACTCGTT
* * *
29192989 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
29193029 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
29193069 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT-AGCA
* *
29193108 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
29193149 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29193174 CATCATTCGA
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 81 0.66
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:29199543 original size:39 final size:39
Alignment explanation
Indices: 29199427--29199609 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
29199417 GCTACTCGTT
*
29199427 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGGCATAGCCCGGATT-TAGTAACTCGCA
* * * *
29199467 CAAATGCTTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGATTTAGTAACTCGCA
* *
29199507 CCAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGATTTAGTAACTCGCA
* * * * * *
29199546 CTAATGCCTTCGGATCTTAGTCCGGA--TAGTCACTTAGCA
1 CAAATGCCTTCGG-GCATAGCCCGGATTTAGTAAC-TCGCA
*
29199585 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CATAGCCCGGA
29199610 CATCATTCGA
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.20
39 42 0.36
40 50 0.42
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGATTTAGTAACTCGCA
Found at i:29206028 original size:16 final size:15
Alignment explanation
Indices: 29206003--29206036 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29205993 AAAGTTGATA
*
29206003 ATAATTAATATATATT
1 ATAATAAATATA-ATT
29206019 ATAATAAATATAATT
1 ATAATAAATATAATT
29206034 ATA
1 ATA
29206037 TACTAGTTAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:29210424 original size:23 final size:23
Alignment explanation
Indices: 29210390--29210438 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
29210380 TTTCTTTCTG
29210390 TATATATTAAAATAATAAT-AAAA
1 TATATATTAAAATAA-AATCAAAA
*
29210413 TATA-ATTAAAAATCAAATCAAAA
1 TATATATT-AAAATAAAATCAAAA
29210436 TAT
1 TAT
29210439 TGATAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TATATATTAAAATAAAATCAAAA
Found at i:29210765 original size:20 final size:20
Alignment explanation
Indices: 29210740--29210782 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
29210730 GTTTTGAGTA
29210740 TTTACTCTTGGGAACAAAAC
1 TTTACTCTTGGGAACAAAAC
29210760 TTTACTCTTGGGAACAAAAC
1 TTTACTCTTGGGAACAAAAC
29210780 TTT
1 TTT
29210783 TCTCACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (20 bp):
TTTACTCTTGGGAACAAAAC
Found at i:29215965 original size:43 final size:43
Alignment explanation
Indices: 29215888--29216038 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
29215878 TATCCCAGAT
* *
29215888 ATGGTCTTACATGTTATCACAT-ACTGATGTCAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATAAC-GATGCCAATGTCCTAGAC
* * * *
29215931 ATGGTCTTACATGAAATCATATAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCTAGAC
* * * *
29215974 ATGATCTTACATGTAATCACA-ATACAATTCTAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATA-ACGATGCCAATGTCCTAGAC
*
29216017 ATGGTCTTACATGTAATTACAT
1 ATGGTCTTACATGTAATCACAT
29216039 CTCGATAATC
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 86 0.97
44 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCTAGAC
Found at i:29233153 original size:43 final size:43
Alignment explanation
Indices: 29233106--29233245 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 43
29233096 TATCCCAGAT
* * *
29233106 ATGGTCTTACATGTTACCACATATCGATGCCTATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATCGATGCCTATGTCCCAAAC
* ** * * *
29233149 ATGGTCTTACACGAAATCATGTAGCGATGCCAATGTCCCACAC
1 ATGGTCTTACACGTAATCACATATCGATGCCTATGTCCCAAAC
* *
29233192 ATGGTCTTACACGTAATCACA-ATACAATG-CTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCT-ATGTCCCAAAC
29233235 ATGGTCTTACA
1 ATGGTCTTACA
29233246 TGAAACTACA
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.03
43 77 0.97
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCTATGTCCCAAAC
Found at i:29233903 original size:19 final size:20
Alignment explanation
Indices: 29233881--29233919 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29233871 TCAAGCATTC
29233881 ATCAATG-GAACTTCAAAAA
1 ATCAATGAGAACTTCAAAAA
*
29233900 ATCATTGAGAACTTCAAAAA
1 ATCAATGAGAACTTCAAAAA
29233920 TTAAGACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (20 bp):
ATCAATGAGAACTTCAAAAA
Found at i:29238151 original size:9 final size:10
Alignment explanation
Indices: 29238118--29238150 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
29238108 CCCTTTGTGC
29238118 AAATCAATCAA
1 AAAT-AATCAA
29238129 AAATAATCAA
1 AAATAATCAA
29238139 AAATAATCAA
1 AAATAATCAA
29238149 AA
1 AA
29238151 TTTATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAATCAA
Found at i:29239066 original size:50 final size:50
Alignment explanation
Indices: 29239010--29239115 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
29239000 GAGTTGAAGA
* **
29239010 TCGGTATGCTATCTCAAGCTATA-ATCAGATATGCTTTCACGAGCTATAAT
1 TCGGTATGCTATCACAAGCTATATATC-GATATGCTCCCACGAGCTATAAT
* * * *
29239060 TTGGTATGCTCTCACGAGCTATATATCGGTATGCTCCCACGAGCTATAAT
1 TCGGTATGCTATCACAAGCTATATATCGATATGCTCCCACGAGCTATAAT
29239110 TCGGTA
1 TCGGTA
29239116 ACCCTAACGA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 44 0.94
51 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (50 bp):
TCGGTATGCTATCACAAGCTATATATCGATATGCTCCCACGAGCTATAAT
Found at i:29239067 original size:25 final size:25
Alignment explanation
Indices: 29239010--29239115 Score: 117
Period size: 25 Copynumber: 4.2 Consensus size: 25
29239000 GAGTTGAAGA
* * *
29239010 TCGGTATGCTATCTCAAGCTATAA-
1 TCGGTATGCTCTCACGAGCTATAAT
* *
29239034 TCAGATATGCTTTCACGAGCTATAAT
1 TC-GGTATGCTCTCACGAGCTATAAT
*
29239060 TTGGTATGCTCTCACGAGCTAT-AT
1 TCGGTATGCTCTCACGAGCTATAAT
*
29239084 ATCGGTATGCTCCCACGAGCTATAAT
1 -TCGGTATGCTCTCACGAGCTATAAT
29239110 TCGGTA
1 TCGGTA
29239116 ACCCTAACGA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.06
25 62 0.90
26 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (25 bp):
TCGGTATGCTCTCACGAGCTATAAT
Found at i:29242827 original size:26 final size:26
Alignment explanation
Indices: 29242798--29242870 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
29242788 GAGGAAGTGC
*
29242798 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
29242824 AAAAGGGCTTATGCCCTAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
29242850 AAAAGGGCTTATGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
29242871 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:29243133 original size:32 final size:35
Alignment explanation
Indices: 29243092--29243216 Score: 141
Period size: 39 Copynumber: 3.5 Consensus size: 35
29243082 CGTTTACAGT
29243092 AAAGGCTTCGGCCCA-G-T-AATATGAAATATGAA
1 AAAGGCTTCGGCCCAGGTTCAATATGAAATATGAA
29243124 AAAGGCTTCGGCCCAGTGTTATGCAATATGAAATATGAA
1 AAAGGCTTCGGCCCAG-G-T-T-CAATATGAAATATGAA
*
29243163 AAAGGCTTCGGCCTAGTGTTATGCAATATGAAATATG-A
1 AAAGGCTTCGGCCCAG-G-T-T-CAATATGAAATATGAA
29243201 AAAGGCTTCGGCCCAG
1 AAAGGCTTCGGCCCAG
29243217 TATATGTTGA
Statistics
Matches: 84, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
32 15 0.18
34 1 0.01
37 1 0.01
38 16 0.19
39 51 0.61
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (35 bp):
AAAGGCTTCGGCCCAGGTTCAATATGAAATATGAA
Found at i:29243163 original size:39 final size:39
Alignment explanation
Indices: 29243109--29243217 Score: 202
Period size: 39 Copynumber: 2.8 Consensus size: 39
29243099 TCGGCCCAGT
29243109 AATATGAAATATGAAAAAGGCTTCGGCCCAGTGTTATGC
1 AATATGAAATATGAAAAAGGCTTCGGCCCAGTGTTATGC
*
29243148 AATATGAAATATGAAAAAGGCTTCGGCCTAGTGTTATGC
1 AATATGAAATATGAAAAAGGCTTCGGCCCAGTGTTATGC
29243187 AATATGAAATATG-AAAAGGCTTCGGCCCAGT
1 AATATGAAATATGAAAAAGGCTTCGGCCCAGT
29243218 ATATGTTGAG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 17 0.25
39 51 0.75
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (39 bp):
AATATGAAATATGAAAAAGGCTTCGGCCCAGTGTTATGC
Found at i:29248533 original size:15 final size:15
Alignment explanation
Indices: 29248513--29248555 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
29248503 TGCTGTAAAT
*
29248513 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
29248528 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
29248543 TGGATTTCTTTAT
1 TGGATTTCTTTAT
29248556 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:29255045 original size:50 final size:48
Alignment explanation
Indices: 29254922--29255120 Score: 335
Period size: 48 Copynumber: 4.1 Consensus size: 48
29254912 GCGGAAATTG
*
29254922 ATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
29254970 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
29255020 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
29255068 ATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
29255116 ATGTA
1 ATGTA
29255121 GGCGATGTGT
Statistics
Matches: 142, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
48 94 0.66
49 4 0.03
50 44 0.31
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:29255084 original size:98 final size:98
Alignment explanation
Indices: 29254925--29255117 Score: 350
Period size: 98 Copynumber: 2.0 Consensus size: 98
29254915 GAAATTGATG
* *
29254925 TATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATACG
*
29254990 TGGTAAAGCCGAATGGTTAATGTGAAATATATA
66 TGGTAAAGCCGAATGGCTAATGTGAAATATATA
29255023 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATACG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATACG
*
29255088 TGGTAAAGCCGAATGGCTAGTGTGAAATAT
66 TGGTAAAGCCGAATGGCTAATGTGAAATAT
29255118 GTAGGCGATG
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (98 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATACG
TGGTAAAGCCGAATGGCTAATGTGAAATATATA
Found at i:29255317 original size:37 final size:37
Alignment explanation
Indices: 29255267--29255338 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
29255257 GGAAATATAT
*
29255267 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
29255304 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
29255339 CATCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:29256208 original size:48 final size:48
Alignment explanation
Indices: 29256137--29256499 Score: 609
Period size: 48 Copynumber: 7.5 Consensus size: 48
29256127 GGGTGTTACA
29256137 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
* *
29256185 CCGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTAGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
* *
29256233 CAGAATGGCTAATGTGAAATATGTATGAGATAAGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
*
29256281 CCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
* *
29256329 CTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTGAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
* * *
29256377 CCGAATTGTTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAG
29256427 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
*
29256475 CCGAATGGCTAGTGTGAAATATGTA
1 CCGAATGGCTAATGTGAAATATGTA
29256500 GGCGATGTGT
Statistics
Matches: 294, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
48 248 0.84
49 4 0.01
50 42 0.14
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
CCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
Found at i:29256707 original size:36 final size:37
Alignment explanation
Indices: 29256645--29256715 Score: 117
Period size: 36 Copynumber: 1.9 Consensus size: 37
29256635 GGAAATATAT
*
29256645 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
29256682 TCCGGGTAAGA-CCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
29256716 CATCTGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 21 0.66
37 11 0.34
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:29258272 original size:41 final size:41
Alignment explanation
Indices: 29258221--29258362 Score: 185
Period size: 41 Copynumber: 3.5 Consensus size: 41
29258211 TGTAAACAAT
* * *
29258221 GGCACTTATGTGCAATTCAAGGGTGCTGAAGTACAAACAGG
1 GGCACGTATGTGCAATTCAAGGGTACAGAAGTACAAACAGG
* * * *
29258262 GGCACGTATGTGCAATTCAGGGGTACCGGAGTACAAACAGA
1 GGCACGTATGTGCAATTCAAGGGTACAGAAGTACAAACAGG
* * *
29258303 GGCATGTATGTGCAATTTAAGGGTACAAAAGTACAAACAGG
1 GGCACGTATGTGCAATTCAAGGGTACAGAAGTACAAACAGG
*
29258344 GGCATGTATGTGCAATTCA
1 GGCACGTATGTGCAATTCA
29258363 GGGAACAATT
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAAGGGTACAGAAGTACAAACAGG
Found at i:29261066 original size:39 final size:38
Alignment explanation
Indices: 29261016--29261115 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 38
29261006 CGAATATAAT
* *
29261016 AATTATAATTACCATAATTATAATAATGTTTGACCGAAA
1 AATTATAATTACAATAATTATAATAATATTTGACCG-AA
* * *
29261055 AATTACAATTACAATAATTATAATAATATTTGATCGTA
1 AATTATAATTACAATAATTATAATAATATTTGACCGAA
*
29261093 AATTATAATTACAAAAATTATAA
1 AATTATAATTACAATAATTATAA
29261116 CAAGGATTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 22 0.41
39 32 0.59
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTTGACCGAA
Found at i:29266229 original size:28 final size:28
Alignment explanation
Indices: 29266189--29266245 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
29266179 AGACCTTAAG
29266189 AAACATGAAGTCCCCGATAGAATATTCA
1 AAACATGAAGTCCCCGATAGAATATTCA
*
29266217 AAACATGAAGTCCTCGATAGAATATTCA
1 AAACATGAAGTCCCCGATAGAATATTCA
29266245 A
1 A
29266246 TCTCCTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (28 bp):
AAACATGAAGTCCCCGATAGAATATTCA
Found at i:29271778 original size:17 final size:19
Alignment explanation
Indices: 29271744--29271783 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
29271734 AGTCATTCGG
29271744 GCCCATGTGGGCCAACAC-
1 GCCCATGTGGGCCAACACA
*
29271762 GCCCATGT-GGCCCACACA
1 GCCCATGTGGGCCAACACA
29271780 GCCC
1 GCCC
29271784 CAGAAATGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.20, C:0.45, G:0.25, T:0.10
Consensus pattern (19 bp):
GCCCATGTGGGCCAACACA
Found at i:29272777 original size:13 final size:13
Alignment explanation
Indices: 29272740--29272785 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
29272730 AAATTGATTG
29272740 AGAAGAGGGAGAA
1 AGAAGAGGGAGAA
* *
29272753 AGAATAGAGAGAA
1 AGAAGAGGGAGAA
*
29272766 GGAAGAGGGAGAGA
1 AGAAGAGGGAGA-A
29272780 AGAAGA
1 AGAAGA
29272786 AAAATTGGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.43, T:0.02
Consensus pattern (13 bp):
AGAAGAGGGAGAA
Found at i:29276053 original size:64 final size:64
Alignment explanation
Indices: 29275952--29276081 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
29275942 ATACAACCCA
* * * *
29275952 AACCATTCAATGAAGCATCATTATAAATCACAAATTCTTTTCCGGACTCTAGTTGAACCAACAC
1 AACCATTCAATGAAACATCACTATAAATCACAAATTCTTTACCGGACTCTAGTTGAAACAACAC
29276016 AACCATTCAATGAAACATCACTATAAATCACAAATTCTTTACCGGACTCTAGTTGAAACAACAC
1 AACCATTCAATGAAACATCACTATAAATCACAAATTCTTTACCGGACTCTAGTTGAAACAACAC
29276080 AA
1 AA
29276082 GTGCCTTGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (64 bp):
AACCATTCAATGAAACATCACTATAAATCACAAATTCTTTACCGGACTCTAGTTGAAACAACAC
Found at i:29285522 original size:46 final size:44
Alignment explanation
Indices: 29285397--29285543 Score: 127
Period size: 46 Copynumber: 3.2 Consensus size: 44
29285387 GTGTCGATGC
* * *
29285397 CATGTCCCAAACATGGTCTAACACTG-ACACATCTCATAGCCAATA
1 CATGTCCCAAACAT-GTCTAACACTGCACTCGTCTCA-AGCCGATA
* * * *
29285442 CATGTGCCAGACATGTCTAACACTGGC-TTGCGTCTCGAGGCCGATA
1 CATGTCCCAAACATGTCTAACACT-GCACT-CGTCTC-AAGCCGATA
* *
29285488 CATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATGCCGATGC
1 CATGTCCCAAACATGTCTAACACT-GCACTCGTCTCAA-GCCGAT-A
29285535 CATGTCCCA
1 CATGTCCCA
29285544 TGCATGGTAT
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.12
45 14 0.17
46 46 0.57
47 11 0.14
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (44 bp):
CATGTCCCAAACATGTCTAACACTGCACTCGTCTCAAGCCGATA
Found at i:29287609 original size:16 final size:18
Alignment explanation
Indices: 29287588--29287621 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
29287578 ACATCAAACT
29287588 CATCAAA-CAGT-AAAAA
1 CATCAAATCAGTCAAAAA
29287604 CATCAAATCAGTCAAAAA
1 CATCAAATCAGTCAAAAA
29287622 GTTGTAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.59, C:0.21, G:0.06, T:0.15
Consensus pattern (18 bp):
CATCAAATCAGTCAAAAA
Found at i:29297352 original size:16 final size:16
Alignment explanation
Indices: 29297331--29297362 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29297321 AAGATCCGAA
*
29297331 GGCATTTGTGCGAGTT
1 GGCATTGGTGCGAGTT
29297347 GGCATTGGTGCGAGTT
1 GGCATTGGTGCGAGTT
29297363 ACTAAATCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.12, G:0.41, T:0.34
Consensus pattern (16 bp):
GGCATTGGTGCGAGTT
Found at i:29297433 original size:40 final size:40
Alignment explanation
Indices: 29297347--29297434 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
29297337 TGTGCGAGTT
* *
29297347 GGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAA
1 GGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAA
*
29297387 GGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 GGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA
29297427 GGCATTTG
1 GGCATTTG
29297435 AACGAGTAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
GGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAA
Found at i:29299639 original size:27 final size:27
Alignment explanation
Indices: 29299609--29299786 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
29299599 ATATTGAGTC
* * * *
29299609 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29299636 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29299663 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29299691 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * **
29299718 CGCACACTTAGTGC-ATTATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29299745 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29299772 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29299787 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29307846 original size:27 final size:27
Alignment explanation
Indices: 29307816--29307993 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
29307806 ATATTGAGTC
* * * *
29307816 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29307843 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29307870 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29307898 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * **
29307925 CGCACACTTAGTGC-ATTATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29307952 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29307979 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29307994 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29317149 original size:39 final size:40
Alignment explanation
Indices: 29317049--29317233 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
29317039 TCGAATGATG
* * *
29317049 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
29317088 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
29317129 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
29317168 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29317207 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29317234 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29317255 original size:79 final size:79
Alignment explanation
Indices: 29317102--29317266 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29317092 GGACTAAGAT
** **
29317102 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
29317167 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29317181 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
29317244 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29317260 CCGAAGG
1 CCGAAGG
29317267 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29319859 original size:26 final size:26
Alignment explanation
Indices: 29319820--29319871 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
29319810 GGCTTACAAG
**
29319820 ACAGCATATGAGACACCTTTAGGGAT
1 ACAGCATACAAGACACCTTTAGGGAT
29319846 ACAGCATACAAGACACCTTTAGGGAT
1 ACAGCATACAAGACACCTTTAGGGAT
29319872 GTCACCCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (26 bp):
ACAGCATACAAGACACCTTTAGGGAT
Found at i:29326687 original size:69 final size:70
Alignment explanation
Indices: 29326555--29326687 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
29326545 TAGTTTATTA
* * * *
29326555 CTAATTAATTTGCTACTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
29326620 CTTAG
66 CTTAG
*
29326625 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
29326688 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 36 0.62
70 22 0.38
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:29327494 original size:39 final size:39
Alignment explanation
Indices: 29327442--29327791 Score: 371
Period size: 40 Copynumber: 8.9 Consensus size: 39
29327432 TATTGATGTA
* *
29327442 TATCCGGACTTAAGGTCCGTAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* *
29327481 TATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
29327520 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGACTT-AAGATCCGCAGGCT-TCGTGCTGGAATTG
* *
29327560 TATCCGGGCTTAAAGACCCGCAGGCGTT-GTGCTGGAATTG
1 TATCCGGACTT-AAGATCCGCAGGC-TTCGTGCTGGAATTG
* *
29327600 TATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
29327639 TATCCGGGCTTAAAGACCCACAGGCTTTGTGCTGGAATTG
1 TATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
29327679 TATCTGGGCTTAAAGACCCGCAGACTTCGTGCTGGAATTG
1 TATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * * * *
29327719 TATCCGGACTTAAGATCTGTAGGCTTCGTGCTGGTACTA
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
29327758 TATTCGGACTTAAGGTCCGTAGGCTTCGTACTGG
1 TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGG
29327792 TACTATATCC
Statistics
Matches: 269, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
38 2 0.01
39 130 0.48
40 135 0.50
41 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTG
Found at i:29327572 original size:79 final size:79
Alignment explanation
Indices: 29327462--29327752 Score: 345
Period size: 79 Copynumber: 3.7 Consensus size: 79
29327452 TAAGGTCCGT
*
29327462 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGG
1 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAAGCTTCGTGCTGGAATTGTATCCGG
29327527 GCTTAAAGACCCGC
66 GCTTAAAGACCCGC
* * * * *
29327541 AGGCTAT-ATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGGCGTT-GTGCTGGAATTGTATC
1 AGGCT-TCGTGCTGGAATTGTATCCGGACTT-AAGATCCGCAAGC-TTCGTGCTGGAATTGTATC
* **
29327604 CGGACTT-AAGGTCCGC
63 CGGGCTTAAAGACCCGC
* * * * * * *
29327620 AAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTTGTGCTGGAATTGTATCTG
1 AGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGATCCGCAAGCTTCGTGCTGGAATTGTATCCG
29327685 GGCTTAAAGACCCGC
65 GGCTTAAAGACCCGC
* * * *
29327700 AGACTTCGTGCTGGAATTGTATCCGGACTTAAGATCTGTAGGCTTCGTGCTGG
1 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAAGCTTCGTGCTGG
29327753 TACTATATTC
Statistics
Matches: 181, Mismatches: 25, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.02
79 109 0.60
80 67 0.37
81 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (79 bp):
AGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAAGCTTCGTGCTGGAATTGTATCCGG
GCTTAAAGACCCGC
Found at i:29327770 original size:119 final size:119
Alignment explanation
Indices: 29327465--29327752 Score: 470
Period size: 119 Copynumber: 2.4 Consensus size: 119
29327455 GGTCCGTAGG
29327465 CTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCT
1 CTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCT
* *
29327530 TAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGG
66 TAAAGACCCACAGGCTATATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGA
29327584 CGTT-GTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGC
1 C-TTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGC
* * * *
29327648 TTAAAGACCCACAGGCTTTGTGCTGGAATTGTATCTGGGCTTAAAGACCCGCAGA
65 TTAAAGACCCACAGGCTATATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGA
* * * *
29327703 CTTCGTGCTGGAATTGTATCCGGACTTAAGATCTGTAGGCTTCGTGCTGG
1 CTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGG
29327753 TACTATATTC
Statistics
Matches: 157, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
118 2 0.01
119 153 0.97
120 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (119 bp):
CTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCT
TAAAGACCCACAGGCTATATGCTGGAATTATATCCGGGCTTAAAGACCCGCAGA
Found at i:29327809 original size:39 final size:39
Alignment explanation
Indices: 29327440--29327802 Score: 154
Period size: 39 Copynumber: 9.2 Consensus size: 39
29327430 GATATTGATG
* * *
29327440 TATATCCGGACTTAAGGTCCGTAGGCTTCGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGTAGGCTTCGTACTGGTAC
* * * * * *
29327479 TGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGTAGGCTTCGTACTGGTAC
* * ** * * * * *
29327518 TGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
1 TATATCCGGACTT-AAGGTCCGTAGGCT-TCGTACTGGTAC
* ** * * * *
29327558 TATATCCGGGCTTAAAGACCCGCAGGCGTT-GTGCTGGAAT
1 TATATCCGGACTT-AAGGTCCGTAGGC-TTCGTACTGGTAC
* * * * * *
29327598 TGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGTAGGCTTCGTACTGGTAC
* * ** ** * * * *
29327637 TGTATCCGGGCTTAAAGACCCACAGGCTTTGTGCTGGAAT
1 TATATCCGGACTT-AAGGTCCGTAGGCTTCGTACTGGTAC
* * * ** * * * * *
29327677 TGTATCTGGGCTTAAAGACCCGCAGACTTCGTGCTGGAAT
1 TATATCCGGACTT-AAGGTCCGTAGGCTTCGTACTGGTAC
* * * *
29327717 TGTATCCGGACTTAAGATCTGTAGGCTTCGTGCTGGTAC
1 TATATCCGGACTTAAGGTCCGTAGGCTTCGTACTGGTAC
*
29327756 TATATTCGGACTTAAGGTCCGTAGGCTTCGTACTGGTAC
1 TATATCCGGACTTAAGGTCCGTAGGCTTCGTACTGGTAC
29327795 TATATCCG
1 TATATCCG
29327803 AGCTTAAAGT
Statistics
Matches: 280, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
38 2 0.01
39 141 0.50
40 135 0.48
41 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGTAGGCTTCGTACTGGTAC
Found at i:29331083 original size:40 final size:40
Alignment explanation
Indices: 29331000--29331263 Score: 352
Period size: 40 Copynumber: 6.6 Consensus size: 40
29330990 TTGAATGCTG
* * * * * *
29331000 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
29331040 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
29331080 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29331120 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
29331160 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
29331200 TTCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
29331240 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29331264 TGAACGAGGA
Statistics
Matches: 204, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.00
40 195 0.96
41 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:29331283 original size:120 final size:120
Alignment explanation
Indices: 29331000--29331298 Score: 345
Period size: 120 Copynumber: 2.5 Consensus size: 120
29330990 TTGAATGCTG
* ** * * * *
29331000 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCAT
*
29331063 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* ** * * *
29331120 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTC
* ** * *
29331185 GTGCGAGTTGTTAAATTCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29331240 TCCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
29331299 TACGTGATTT
Statistics
Matches: 153, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
119 17 0.11
120 130 0.85
121 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:29333440 original size:43 final size:42
Alignment explanation
Indices: 29333374--29333530 Score: 194
Period size: 43 Copynumber: 3.7 Consensus size: 42
29333364 AGCTTGTACA
*
29333374 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATA-CG
*
29333417 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATACG
* *
29333459 ATGCCAACATCCCAGACGTGGTCTTACATATAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACAT-GAAATCA-AA-TACG
*
29333503 ATGCCAACGTCCCAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
29333531 CGATAACACA
Statistics
Matches: 100, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 41 0.41
44 31 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATACG
Found at i:29333527 original size:86 final size:85
Alignment explanation
Indices: 29333374--29333533 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 85
29333364 AGCTTGTACA
* *
29333374 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGACAGGGT
29333439 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * *
29333459 ATGCCAACATCCCAGACGTGGTCTTACATATAAATCATAA-GTCGATGCCAAC-GTCCCAGA-TG
1 ATGCCAACATCCCAGACGTGGTCTTACAT-GAAATCA-AATATCGATGCC-ACTGTCCCAGACAG
29333521 TGGTCTTACACGA
63 -GGTCTTACACGA
29333534 TAACACATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
85 29 0.44
86 33 0.50
87 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (85 bp):
ATGCCAACATCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGACAGGGT
CTTACACGAAATCAAATACG
Found at i:29353323 original size:40 final size:40
Alignment explanation
Indices: 29353269--29353461 Score: 327
Period size: 40 Copynumber: 4.9 Consensus size: 40
29353259 GATATAGCTT
*
29353269 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
29353309 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
29353349 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
29353389 CTCGCACAAATGCCTTC-GGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
29353428 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
29353462 CAATCCGAAT
Statistics
Matches: 145, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 50 0.34
40 95 0.66
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:29362977 original size:79 final size:79
Alignment explanation
Indices: 29362833--29363050 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 79
29362823 GAATCACGTA
* * * * * *
29362833 CCTTCGGAATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAG-TACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
29362897 TAACTCGCACAAATG
65 TAACTCGCACAAATG
*
29362912 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGT-ACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATA
29362975 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
* * * *
29362991 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
29363051 CATCATTCGA
Statistics
Matches: 119, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 72 0.61
80 44 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAGT
AACTCGCACAAATG
Found at i:29363050 original size:40 final size:40
Alignment explanation
Indices: 29362847--29363050 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
29362837 CGGAATTTAA
* *
29362847 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29362887 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29362927 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29362966 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29363006 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29363046 CCGGA
1 CCGGA
29363051 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29365808 original size:85 final size:85
Alignment explanation
Indices: 29365665--29365843 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
29365655 GGCCGGCCAT
29365665 GAGCATGGGTGGAAAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGAAAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
29365730 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
29365750 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGAAAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
29365815 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
29365835 GAGCATGGG
1 GAGCATGGG
29365844 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGAAAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:29367111 original size:39 final size:40
Alignment explanation
Indices: 29367009--29367193 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
29366999 TCGAATGATG
* * * *
29367009 TCCGGGCTAAGTCCCGAAGGC-TTTGGGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
29367048 ATCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29367089 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29367128 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29367167 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29367194 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29367215 original size:79 final size:79
Alignment explanation
Indices: 29367063--29367226 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 79
29367053 GACTAAGATT
* **
29367063 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* *
29367128 TCTGGGTTAAGTCC
66 TCTCGGTTAAATCC
* *
29367142 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
* *
29367205 ATATC-CGGTTAAATTC
63 AAATCTCGGTTAAATCC
29367221 CGAAGG
1 CGAAGG
29367227 TACGTGATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCTCGGTTAAATCC
Found at i:29373717 original size:44 final size:44
Alignment explanation
Indices: 29373588--29373717 Score: 105
Period size: 39 Copynumber: 3.0 Consensus size: 44
29373578 GCCGGCCATG
29373588 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAAC
1 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAAC
* ** * * *
29373632 ATG-TTGGTGTAGTG-CATTATG-TAAGGATTAATAA-A----ATAAAC
1 A-GCATGG-GT-G-GACAAGATGTTATGG-CTAAAAACATGTCATAAAC
29373673 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAAC
1 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAAC
29373717 A
1 A
29373718 TGTTGGGGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 26
0.62 0.12 0.26
Matches are distributed among these distances:
38 1 0.02
39 11 0.18
40 8 0.13
41 10 0.16
44 11 0.18
45 8 0.13
46 11 0.18
47 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (44 bp):
AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAAC
Found at i:29373731 original size:85 final size:85
Alignment explanation
Indices: 29373588--29373765 Score: 338
Period size: 85 Copynumber: 2.1 Consensus size: 85
29373578 GCCGGCCATG
*
29373588 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGTGTAGTGCATTATG
1 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
29373653 TAAGGATTAATAAAATAAAC
66 TAAGGATTAATAAAATAAAC
29373673 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
1 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
*
29373738 TAAGGATTAATAAAATAAAG
66 TAAGGATTAATAAAATAAAC
29373758 AGCATGGG
1 AGCATGGG
29373766 CAATAAAATA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (85 bp):
AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
TAAGGATTAATAAAATAAAC
Found at i:29373756 original size:41 final size:41
Alignment explanation
Indices: 29373626--29373756 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
29373616 AAAACATGTC
*
29373626 ATAAACATGTTGGTGTAGTGCATTATGTAAGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
* ** * * *
29373667 ATAAACA-GCAT-GGGT-G-GACAAGATGTTATGG-CTAAAAACA
1 ATAAACATG-TTGGGGTAGTG-CATTATG-TAAGGATTAATAA-A
29373707 TGTCATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
29373752 ATAAA
1 ATAAA
29373757 GAGCATGGGC
Statistics
Matches: 64, Mismatches: 13, Indels: 26
0.62 0.13 0.25
Matches are distributed among these distances:
38 1 0.02
39 11 0.17
40 9 0.14
41 13 0.20
44 8 0.12
45 10 0.16
46 11 0.17
47 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
Found at i:29374798 original size:21 final size:22
Alignment explanation
Indices: 29374772--29374822 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
29374762 ATTTGATTAG
29374772 ATCATGCTTTAAGCAAATC-AA
1 ATCATGCTTTAAGCAAATCAAA
29374793 ATCATGCTTTAAGCAAATCAAA
1 ATCATGCTTTAAGCAAATCAAA
29374815 ATCATGCT
1 ATCATGCT
29374823 CTTTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (22 bp):
ATCATGCTTTAAGCAAATCAAA
Found at i:29375052 original size:39 final size:40
Alignment explanation
Indices: 29374951--29375135 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
29374941 TCGAATGACG
* * * * *
29374951 TCCGGGTTAAGTCCCGAAGGC-TTTGGGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
29374990 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29375031 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
29375070 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29375109 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29375136 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29375157 original size:79 final size:79
Alignment explanation
Indices: 29375004--29375168 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
29374994 GGACTAAGAT
* **
29375004 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
29375069 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29375083 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
29375146 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29375162 CCGAAGG
1 CCGAAGG
29375169 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29382232 original size:79 final size:80
Alignment explanation
Indices: 29382064--29382248 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
29382054 GCTACTCGTT
* *
29382064 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
29382128 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
29382145 CAATGCCTTCGGG-CTTGGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
29382208 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
29382224 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
29382249 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Done.