Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 59 of 410
Found at i:15890810 original size:29 final size:28
Alignment explanation
Indices: 15890740--15890814 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
15890730 ATACTCGATT
* *
15890740 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
15890768 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
15890797 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
15890815 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:15890831 original size:29 final size:29
Alignment explanation
Indices: 15890798--15890871 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
15890788 CCTTCGAGCT
15890798 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
15890827 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
15890856 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
15890872 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:15897757 original size:40 final size:40
Alignment explanation
Indices: 15897713--15897895 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
15897703 TGGCTAATTT
*
15897713 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * *
15897753 CGGGCTATGTCCCGAAGGCGTTTGTGCGAGCTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * *
15897793 CGGGCTAAGTCCCGAAGGCATTTGTACGAGTTATTATA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * * *
15897832 CGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
15897872 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
15897896 AGCTAGTGGC
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.27
40 94 0.73
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
Found at i:15897875 original size:79 final size:80
Alignment explanation
Indices: 15897713--15897895 Score: 260
Period size: 79 Copynumber: 2.3 Consensus size: 80
15897703 TGGCTAATTT
* * * *
15897713 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTATGTCCCGAAGGCGTTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTACGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
* * *
15897778 GCGAGCTATTATATC
66 GCAAGCTACTATAAC
* * *
15897793 CGGGCTAAGTCCCGAAGGCATTTGTACGAGTTATTATA-CCGGGCTAAGTCCTGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTACGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
15897857 GCAAGTTACTATAAC
66 GCAAGCTACTATAAC
15897872 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
15897896 AGCTAGTGGC
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 58 0.63
80 34 0.37
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTACGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAAC
Found at i:15897909 original size:40 final size:39
Alignment explanation
Indices: 15897672--15897918 Score: 225
Period size: 40 Copynumber: 6.2 Consensus size: 39
15897662 CGGATGATAA
* * *
15897672 CCGGGCTAAGTCCCG-AGATCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCGAGT-ACTATA-T
* * *
15897712 TCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTATAT
* * * *
15897752 CCGGGCTATGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTATAT
*
15897792 CCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTG-AGCGAG-TACTATAT
* * * *
15897831 CCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTATAT
* *
15897871 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-ACTATAT
15897911 CC-GGCTAA
1 CCGGGCTAA
15897919 ACTCTGAAGG
Statistics
Matches: 176, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
39 41 0.23
40 131 0.74
41 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTACTATAT
Found at i:15897928 original size:79 final size:79
Alignment explanation
Indices: 15897713--15897918 Score: 247
Period size: 79 Copynumber: 2.6 Consensus size: 79
15897703 TGGCTAATTT
* * * * *
15897713 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTATGTCCCGAAGGCGTTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTATATCCGGGCTAAGTCCTGAAGGCATTTGT
* * *
15897778 GCGAGCTATTATATC
65 GCAAGCTACTATAAC
*
15897793 CGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTATTATA-CCGGGCTAAGTCCTGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG-AGCGAG-TACTATATCCGGGCTAAGTCCTGAAGGCATTTG
*
15897856 TGCAAGTTACTATAAC
64 TGCAAGCTACTATAAC
* *
15897872 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-ACTATATCCGGGCTAA
15897919 ACTCTGAAGG
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 71 0.66
80 35 0.32
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTACTATATCCGGGCTAAGTCCTGAAGGCATTTGTG
CAAGCTACTATAAC
Found at i:15899967 original size:52 final size:51
Alignment explanation
Indices: 15899847--15899994 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
15899837 ACTAGTGACT
* *
15899847 CAAGTGTGGTACTATGTGAAGGCCACTTTGAG-AAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAAAGATAGCTTTGGTCA
15899896 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA-AAAGATAGCTTTGGTCA
* * *
15899948 CAAGTGTAGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTG
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAAAGATAGCTTTG
15899995 ACTATAGGGT
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
49 31 0.34
50 1 0.01
51 19 0.21
52 40 0.44
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAAAGATAGCTTTGGTCA
Found at i:15907266 original size:30 final size:30
Alignment explanation
Indices: 15907230--15907330 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
15907220 GACAAGATTG
* * *
15907230 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
15907260 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
15907288 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
15907317 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15907331 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:15907342 original size:29 final size:28
Alignment explanation
Indices: 15907259--15907334 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
15907249 AAAATTGTAC
* *
15907259 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
15907287 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
15907316 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
15907335 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:15911659 original size:22 final size:22
Alignment explanation
Indices: 15911625--15911682 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
15911615 TTCACTAATG
15911625 TAATAACCA-TAAATCGTAGCTC
1 TAAT-ACCACTAAATCGTAGCTC
*
15911647 TAATACTACTAAATCGTAGCTC
1 TAATACCACTAAATCGTAGCTC
15911669 TAATACCACTAAAT
1 TAATACCACTAAAT
15911683 GTAATGACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 3 0.09
22 30 0.91
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (22 bp):
TAATACCACTAAATCGTAGCTC
Found at i:15916098 original size:40 final size:39
Alignment explanation
Indices: 15916003--15916185 Score: 145
Period size: 40 Copynumber: 4.6 Consensus size: 39
15915993 TGCTGGAAAT
* * * * **
15916003 TATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
*
15916042 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
15916082 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCAC
* * * * * *
15916120 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
15916161 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
15916186 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
38 3 0.03
39 52 0.45
40 58 0.50
41 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:15916126 original size:79 final size:80
Alignment explanation
Indices: 15916008--15916190 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 80
15915998 GAAATTATAA
* * * *
15916008 CCGGGTTAAGACCCGAAGGCA-ATGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
*
15916072 TGCGAGTCATTC-TAT
66 TGCGAGTCA-CCATAT
* * * * *
15916087 CCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
* *
15916150 GTGCGGGTTACCATAT
65 GTGCGAGTCACCATAT
* * *
15916166 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGACCCGAAGGCATTTG
15916191 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 2 0.02
79 79 0.92
80 5 0.06
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCACCATAT
Found at i:15923763 original size:40 final size:40
Alignment explanation
Indices: 15923657--15923840 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
15923647 TGCTGGAAAT
* * * * * **
15923657 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
15923697 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
15923737 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
15923775 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
15923816 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
15923841 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:15941410 original size:21 final size:20
Alignment explanation
Indices: 15941381--15941420 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
15941371 TGTGACCGTT
15941381 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
15941402 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
15941421 ACAAGTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:15941428 original size:20 final size:21
Alignment explanation
Indices: 15941386--15941429 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
15941376 CCGTTAATGA
*
15941386 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
15941407 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
15941427 TTG
1 TTG
15941430 TTAAATGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.48
21 10 0.48
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:15943569 original size:80 final size:80
Alignment explanation
Indices: 15943485--15943633 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
15943475 TATGGTAACC
* * * *
15943485 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
15943549 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
15943565 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
15943630 CCGG
66 CCGG
15943634 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:15943575 original size:40 final size:38
Alignment explanation
Indices: 15943526--15943633 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
15943516 ATCACGATTT
*
15943526 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
15943566 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
15943606 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
15943634 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:15951645 original size:80 final size:80
Alignment explanation
Indices: 15951561--15951709 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
15951551 TATGGTAACC
* * * *
15951561 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
15951625 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
15951641 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
15951706 CCGG
66 CCGG
15951710 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:15951651 original size:40 final size:38
Alignment explanation
Indices: 15951602--15951709 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
15951592 ATCACGATTT
*
15951602 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
15951642 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
15951682 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
15951710 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:15958317 original size:24 final size:24
Alignment explanation
Indices: 15958285--15958396 Score: 109
Period size: 24 Copynumber: 4.6 Consensus size: 24
15958275 TGTTACTCAT
*
15958285 TCGCACACATAGTGCCACGT-TTCC
1 TCGCACACATAGTGCCACGTAAT-C
* *
15958309 TCGCACACATAGTGCTATGTAATC
1 TCGCACACATAGTGCCACGTAATC
* * *
15958333 TCACACACATAGTGCCACGTAGTTT
1 TCGCACACATAGTGCCACGTA-ATC
* * * *
15958358 TTGCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCACGTAATC
15958382 TCGCACACATAGTGC
1 TCGCACACATAGTGC
15958397 TGAAATTTCT
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 51 0.73
25 19 0.27
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAATC
Found at i:15958389 original size:49 final size:48
Alignment explanation
Indices: 15958285--15958396 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 48
15958275 TGTTACTCAT
* ** *
15958285 TCGCACACATAGTGCCACGTTTCCTCGCACACATAGTGCTATGTAATC
1 TCGCACACATAGTGCCACGTTTCCTCGCACACATAGTGCCACATAACC
* * * *
15958333 TCACACACATAGTGCCACGTAGTT-TTTGCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCACGT--TTCCTCGCACACATAGTGCCACATAACC
15958382 TCGCACACATAGTGC
1 TCGCACACATAGTGC
15958397 TGAAATTTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
48 19 0.36
49 32 0.60
50 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
TCGCACACATAGTGCCACGTTTCCTCGCACACATAGTGCCACATAACC
Found at i:15968094 original size:28 final size:28
Alignment explanation
Indices: 15968054--15968155 Score: 145
Period size: 28 Copynumber: 3.6 Consensus size: 28
15968044 GTTCAAATTG
* *
15968054 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
*
15968082 TATAGCAATAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
15968110 T-TAAGCACTAAGTGTGCGAGTTCGACTA
1 TAT-AGCACTAAGTGTGCGAGTTCGACTA
15968138 TCA-AGCACTAAGTGTGCG
1 T-ATAGCACTAAGTGTGCG
15968156 GGCTTATTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
27 1 0.01
28 66 0.99
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:15969766 original size:39 final size:39
Alignment explanation
Indices: 15969685--15969847 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
15969675 TATGGTAACC
* *
15969685 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
15969725 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
15969764 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
15969803 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
15969842 CGCACA
1 CGCACA
15969848 TTCATACACG
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:15970966 original size:34 final size:34
Alignment explanation
Indices: 15970928--15970998 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
15970918 CAAGGATGAA
15970928 CAAAATTTTTTTGTTTTCTTTCTTAGTTGCACGG
1 CAAAATTTTTTTGTTTTCTTTCTTAGTTGCACGG
15970962 CAAAATTTTTTTGTTTTCTTTCTTAGTTGCACGG
1 CAAAATTTTTTTGTTTTCTTTCTTAGTTGCACGG
15970996 CAA
1 CAA
15970999 TGGGGGGGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (34 bp):
CAAAATTTTTTTGTTTTCTTTCTTAGTTGCACGG
Found at i:15974498 original size:40 final size:40
Alignment explanation
Indices: 15974453--15974582 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
15974443 CGGAATATAA
15974453 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
15974493 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
15974533 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
15974573 CCGGATATAA
1 CCGGATATAA
15974583 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:15974597 original size:40 final size:40
Alignment explanation
Indices: 15974469--15974620 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
15974459 ATAAGCATGT
* * *
15974469 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
15974509 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
15974549 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
15974589 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
15974621 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:15974603 original size:80 final size:80
Alignment explanation
Indices: 15974469--15974620 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
15974459 ATAAGCATGT
* *
15974469 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
15974534 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
15974549 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
15974612 CCCGGATAT
64 CCCGGATAT
15974621 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:15981036 original size:68 final size:68
Alignment explanation
Indices: 15980889--15981044 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
15980879 AGCCGATTTG
* * * * *
15980889 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
15980954 TATC
65 TATA
* *
15980958 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
15981020 ATATAGTA
62 ATATA-TA
15981028 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
15981045 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:15987466 original size:24 final size:24
Alignment explanation
Indices: 15987435--15987486 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
15987425 TATAGCTTAG
15987435 TAAG-TAAGTATATAAATAACAAA
1 TAAGATAAGTATATAAATAACAAA
15987458 TAAGATAAGTATATAAATAACAAA
1 TAAGATAAGTATATAAATAACAAA
15987482 TAAGA
1 TAAGA
15987487 AATCTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.25
Consensus pattern (24 bp):
TAAGATAAGTATATAAATAACAAA
Found at i:15993262 original size:46 final size:46
Alignment explanation
Indices: 15993209--15993380 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
15993199 TGGGCATCCA
*
15993209 AACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * * * * *
15993255 AACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCATTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCCG
* * *
15993302 AACTCGTTGAGTTGAG-CCTGAGTTCACTCATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCC-GAGTTCACTTATGGATGCAAATGTCCG
* * *
15993348 AGCTCGTTGAGTTTAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15993381 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 53 0.54
47 26 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
Found at i:16002379 original size:48 final size:48
Alignment explanation
Indices: 16002327--16002422 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
16002317 CATCTTGAAT
16002327 ACATGGATAAGACCACATTTGTAACCATTTGGAGAACATTTTGCTATA
1 ACATGGATAAGACCACATTTGTAACCATTTGGAGAACATTTTGCTATA
16002375 ACATGGATAAGACCACATTTGTAACCATTTGGAGAACATTTTGCTATA
1 ACATGGATAAGACCACATTTGTAACCATTTGGAGAACATTTTGCTATA
16002423 CAGTGATGCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (48 bp):
ACATGGATAAGACCACATTTGTAACCATTTGGAGAACATTTTGCTATA
Found at i:16011116 original size:39 final size:39
Alignment explanation
Indices: 16011008--16011211 Score: 286
Period size: 39 Copynumber: 5.2 Consensus size: 39
16010998 AACCCAAGTA
* * * *
16011008 CCTTCGGAATTTAGCCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCGGATATAGTC-ACTAGCACAAATG
* *
16011047 CCTTTGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATG
16011087 CCTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATG
*
16011126 CCTTCGGGACTTAGCCCGGATATAATCACTAGCAC-AATG
1 CCTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATG
*
16011165 CCTTCGGGACTTAGCCTGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCC-GGATATAGTCACTAGCACAAATG
16011205 CCTTCGG
1 CCTTCGG
16011212 ATCTTAGTCC
Statistics
Matches: 151, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
38 2 0.01
39 85 0.56
40 63 0.42
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATG
Found at i:16011139 original size:79 final size:78
Alignment explanation
Indices: 16011008--16011211 Score: 302
Period size: 79 Copynumber: 2.6 Consensus size: 78
16010998 AACCCAAGTA
* * * * * *
16011008 CCTTCGGAATTTAGCCGGATATAG-CAACTCGCACGAATGCCTTTGGGACTTAGCCCGGACATAG
1 CCTTCGGGACTTAGCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
16011072 TCACTAGCACAAATG
65 TCACTAGCAC-AATG
*
16011087 CCTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
1 CCTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAAT
16011152 CACTAGCACAATG
66 CACTAGCACAATG
*
16011165 CCTTCGGGACTTAGCCTGGATATAATCACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCC-GGATATAGTCACTAGCACAAATGCCTTCGG
16011212 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
78 20 0.17
79 94 0.82
80 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAAT
CACTAGCACAATG
Found at i:16019020 original size:40 final size:40
Alignment explanation
Indices: 16018941--16019145 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
16018931 AACCCAAGTA
* * * *
16018941 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
16018980 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
16019020 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
16019060 CCTTCGGGACTTAGCCCGGATATAATCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
16019099 CCTTCGGGACTTAGCCTGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
16019139 CCTTCGG
1 CCTTCGG
16019146 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 50 0.32
40 104 0.67
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:16019152 original size:79 final size:79
Alignment explanation
Indices: 16018941--16019145 Score: 297
Period size: 79 Copynumber: 2.6 Consensus size: 79
16018931 AACCCAAGTA
* * * * * *
16018941 CCTTCGGAATTTAGCCGGATAT-AGCAACTCGCACGAATGCCTTCGGGACTTAGCCCGGACATAG
1 CCTTCGGGACTTAGCCGGATATAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
16019005 TCACTAGCACAAATG
65 TCACTAGCACAAATG
* *
16019020 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAG-CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
16019085 TCACTAGCAC-AATG
65 TCACTAGCACAAATG
16019099 CCTTCGGGACTTAGCCTGGATATAATCACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCC-GGATATAATCACTAGCACAAATGCCTTCGG
16019146 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
78 2 0.02
79 59 0.52
80 52 0.46
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAAT
CACTAGCACAAATG
Found at i:16024382 original size:183 final size:183
Alignment explanation
Indices: 16024068--16024436 Score: 684
Period size: 183 Copynumber: 2.0 Consensus size: 183
16024058 TAGGTTTCCC
*
16024068 ACACAAACACTACCTATCACACGAACGTGCCTTAGGCTATGTGAAAACGGGGTAAATATTTCCCC
1 ACACAAACACTACCTATCACACGAACGTGCCTTAGGCTATGTGAAAACAGGGTAAATATTTCCCC
*
16024133 ACCACGGGCTACAATAAATTGCCACGGCCATGCAACATGGCTGTGGGCAAACCTGCCAAAACAAT
66 ACCACGGGCTACAATAAATTGCCACGGCCATGCAACATGGCTGTAGGCAAACCTGCCAAAACAAT
16024198 ACGGGCGTACGACACGCCCGTGCCTTGAAACAATGGCTGAAACTGTCAAATTA
131 ACGGGCGTACGACACGCCCGTGCCTTGAAACAATGGCTGAAACTGTCAAATTA
* *
16024251 ACACAGACACTACCTATCACACGGACGTGCCTTAGGCTATGTGAAAACAGGGTAAATATTTCCCC
1 ACACAAACACTACCTATCACACGAACGTGCCTTAGGCTATGTGAAAACAGGGTAAATATTTCCCC
**
16024316 ACCACGGGCTACAATAAATTGCCACGGCCATGCAACATGGCTGTAGGCTGACCTGCCAAAACAAT
66 ACCACGGGCTACAATAAATTGCCACGGCCATGCAACATGGCTGTAGGCAAACCTGCCAAAACAAT
16024381 ACGGGCGTACGACACGCCCGTGCCTTGAAACAATGGCTGAAACTGTCAAATTA
131 ACGGGCGTACGACACGCCCGTGCCTTGAAACAATGGCTGAAACTGTCAAATTA
16024434 ACA
1 ACA
16024437 TGGGCGTGTG
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 180 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.19
Consensus pattern (183 bp):
ACACAAACACTACCTATCACACGAACGTGCCTTAGGCTATGTGAAAACAGGGTAAATATTTCCCC
ACCACGGGCTACAATAAATTGCCACGGCCATGCAACATGGCTGTAGGCAAACCTGCCAAAACAAT
ACGGGCGTACGACACGCCCGTGCCTTGAAACAATGGCTGAAACTGTCAAATTA
Found at i:16026487 original size:35 final size:35
Alignment explanation
Indices: 16026420--16026485 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
16026410 ACTTTTATTT
* * *
16026420 ATTATTTTATGTTTTTACTTTTATTTTATTTTAAG
1 ATTATTTTATATTTTTACTTTCATCTTATTTTAAG
*
16026455 ATTATTTTTTATTTTT-CTTTCATCTTATTTT
1 ATTATTTTATATTTTTACTTTCATCTTATTTT
16026486 TATTAGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 13 0.48
35 14 0.52
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (35 bp):
ATTATTTTATATTTTTACTTTCATCTTATTTTAAG
Found at i:16032808 original size:50 final size:49
Alignment explanation
Indices: 16032631--16032871 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 49
16032621 TAGCCGAAGC
* * * *
16032631 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
16032680 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACTACACACGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAG---TACTACACACGTGACCAAT
*
16032732 TATCTGGTACATATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
16032782 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCA-A-T
* * *
16032833 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
16032872 TGCGATCTCA
Statistics
Matches: 166, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
49 43 0.26
50 45 0.27
51 34 0.20
52 44 0.27
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:16032842 original size:101 final size:99
Alignment explanation
Indices: 16032631--16032876 Score: 314
Period size: 101 Copynumber: 2.4 Consensus size: 99
16032621 TAGCCGAAGC
* * * * * *
16032631 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATCATCCGATACACGTAG
16032696 TAGCCTGCACTTAGTACTACTACACACGTGACCAAT
66 TAGCCTGCACTTAG-A-TACTACACACGTGACCAAT
* * * *
16032732 TATCTGGTACATATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCATCTGATACACGTA
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AATCATCCGATACACGTA
*
16032797 GTAGCCTGCACTTAG-TACTACACACGTGATCATAGT
65 GTAGCCTGCACTTAGATACTACACACGTGACCA-A-T
* * *
16032833 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
16032877 TCTCACAATA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
99 16 0.13
100 1 0.01
101 80 0.63
102 30 0.24
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATCATCCGATACACGTAG
TAGCCTGCACTTAGATACTACACACGTGACCAAT
Found at i:16049890 original size:40 final size:39
Alignment explanation
Indices: 16049766--16049917 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 39
16049756 CGATTGATGT
* *
16049766 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ATCATAA
*
16049806 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGT-TCCCA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTAT--CATAA
* *
16049845 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TATCATAA
* * *
16049886 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
16049918 CGCTATATCC
Statistics
Matches: 93, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
38 1 0.01
39 3 0.03
40 77 0.83
41 11 0.12
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTATCATAA
Found at i:16049929 original size:80 final size:80
Alignment explanation
Indices: 16049765--16049917 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 80
16049755 TCGATTGATG
*
16049765 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATCATAACCGGACTAAGATCCGAAGGCATTT
*
16049830 GTGCGAGTTCCCAAA
66 GAGCGAGTTCCCAAA
* * * * * *
16049845 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGCT-ATTATAACCGGGCTATG-TCCCGAAGGCT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGATCATAACCGGACTAAGAT-CCGAAGGCA
16049907 TTTGAGCGAGT
63 TTTGAGCGAGT
16049918 CGCTATATCC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.02
80 53 0.85
81 8 0.13
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATCATAACCGGACTAAGATCCGAAGGCATTT
GAGCGAGTTCCCAAA
Found at i:16067548 original size:29 final size:29
Alignment explanation
Indices: 16067515--16067646 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
16067505 GTGACGAGAT
16067515 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
16067544 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
16067573 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
16067602 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
16067631 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
16067647 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:16071720 original size:24 final size:24
Alignment explanation
Indices: 16071680--16071726 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16071670 CTATCAGGAG
*
16071680 AGGATTTAAGAGCTGATAAGGGAA
1 AGGATTTAAGAGATGATAAGGGAA
* *
16071704 AGGATTTAGGAGATGATTAGGGA
1 AGGATTTAAGAGATGATAAGGGA
16071727 GAACGGTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.36, T:0.23
Consensus pattern (24 bp):
AGGATTTAAGAGATGATAAGGGAA
Found at i:16073254 original size:54 final size:52
Alignment explanation
Indices: 16073170--16073279 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 52
16073160 AGGAAACGTC
*
16073170 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACA-TACCACAT-TATCTGTT
* * **
16073224 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACATGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACATACCACATTATCTGTT
16073276 CTGG
1 CTGG
16073280 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 12 0.24
53 6 0.12
54 33 0.65
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (52 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACATACCACATTATCTGTT
Found at i:16073275 original size:25 final size:25
Alignment explanation
Indices: 16073170--16073279 Score: 121
Period size: 27 Copynumber: 4.2 Consensus size: 25
16073160 AGGAAACGTC
*
16073170 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGC-ATGCCAC-ATTATCTGTT
*
16073197 CTGGTGGCACTACCACATATATCTGTT
1 CTGGTGGCA-TGCCACAT-TATCTGTT
*
16073224 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGC-ATGCCAC-ATTATCTGTT
* *
16073251 CTGGTGACATGTCACATTATCTGTT
1 CTGGTGGCATGCCACATTATCTGTT
16073276 CTGG
1 CTGG
16073280 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
25 14 0.19
26 8 0.11
27 48 0.67
28 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
CTGGTGGCATGCCACATTATCTGTT
Found at i:16079549 original size:24 final size:24
Alignment explanation
Indices: 16079503--16079580 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
16079493 AAGGCTGTCA
* *
16079503 GGAGAAGATTTGGAGAGCTGATAAG
1 GGAGAGGATTTAG-GAGCTGATAAG
16079528 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
16079552 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
16079576 GGAGA
1 GGAGA
16079581 ACGATGTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
24 39 0.78
25 11 0.22
ACGTcount: A:0.33, C:0.04, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:16080574 original size:16 final size:15
Alignment explanation
Indices: 16080548--16080577 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16080538 ACTAGATCGG
16080548 CGAAAGCCGAAAAGC
1 CGAAAGCCGAAAAGC
16080563 CGAAATGCCGAAAAG
1 CGAAA-GCCGAAAAG
16080578 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.23, G:0.27, T:0.03
Consensus pattern (15 bp):
CGAAAGCCGAAAAGC
Found at i:16081075 original size:28 final size:26
Alignment explanation
Indices: 16081013--16081104 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 26
16081003 CACAATTATT
*
16081013 TTATCTGATCTGGT-GCTCTGC-CAA
1 TTATCTGTTCTGGTGGCTCTGCACAA
16081037 TATATCTGTTCTGGTGGCTCTGCCACAA
1 T-TATCTGTTCTGGTGGCTCTG-CACAA
*
16081065 TTATCTTGTTCTGGTGACTCTGTCAC-A
1 TTATC-TGTTCTGGTGGCTCTG-CACAA
16081092 TTATCTGTTCTGG
1 TTATCTGTTCTGG
16081105 CAGCCATGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
24 1 0.02
25 12 0.20
26 14 0.23
27 11 0.18
28 22 0.37
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (26 bp):
TTATCTGTTCTGGTGGCTCTGCACAA
Found at i:16087367 original size:24 final size:24
Alignment explanation
Indices: 16087340--16087417 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
16087330 AAGGCTGTCA
16087340 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
16087364 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
16087388 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
16087412 GGAGAA
1 GGAGAA
16087418 CGGTGTTGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:16089818 original size:39 final size:39
Alignment explanation
Indices: 16089706--16089921 Score: 298
Period size: 39 Copynumber: 5.5 Consensus size: 39
16089696 TCGGATGATA
16089706 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC--T-AT
*
16089748 ACCGGGC-AAGT-CCGAAGGCATTTGTGTGAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
16089785 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
16089824 ATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
16089863 ATCCGGGCTAAGT-CCGAAGGCAGTTGAGCGAG-TAGCTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT
*
16089902 ATCC-GGCTAAATCCCGAAGG
1 A-CCGGGCTAAGTCCCGAAGG
16089922 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 7, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
37 9 0.06
38 14 0.09
39 96 0.59
40 32 0.20
41 4 0.02
42 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:16094395 original size:40 final size:40
Alignment explanation
Indices: 16094287--16094437 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
16094277 CGAATGGTAT
* * * *
16094287 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
16094328 CCGGG-TCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
16094367 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
16094406 CCGGGCTAATGTCCCGAAGGC-TTTGAGCGAGT
1 CCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGT
16094438 CGCTATATCC
Statistics
Matches: 93, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
39 37 0.40
40 49 0.53
41 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:16094423 original size:80 final size:79
Alignment explanation
Indices: 16094287--16094437 Score: 184
Period size: 80 Copynumber: 1.9 Consensus size: 79
16094277 CGAATGGTAT
*
16094287 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCGAAGGC-TTTG
*
16094352 TGCGAGTTACCAAAA
65 AGCGAGTTACCAAAA
* * *
16094367 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGT-ATTATAA-CCGGG-CTAATGTCCCGAAGGCT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTA-AATCCGGGTC-AAT-T-CCGAAGGCT
16094428 TTGAGCGAGT
62 TTGAGCGAGT
16094438 CGCTATATCC
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
77 1 0.02
78 11 0.18
79 16 0.26
80 34 0.55
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCGAAGGCTTTGA
GCGAGTTACCAAAA
Found at i:16102367 original size:40 final size:40
Alignment explanation
Indices: 16102271--16102423 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
16102261 CGAATGGTAT
* * * *
16102271 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
16102312 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
16102352 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
16102392 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
16102424 CGCTATATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 69 0.73
41 25 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:16112827 original size:39 final size:38
Alignment explanation
Indices: 16112782--16112950 Score: 128
Period size: 39 Copynumber: 4.4 Consensus size: 38
16112772 ACATGAGGTT
16112782 CGCAGGCTATATGCTGGAAAAATATTCGGGTTAAAGACC
1 CGCAGGCTATATGCTGGAAAAATA-TCGGGTTAAAGACC
* *** * *
16112821 CGCAGGCTATATGCTGGAAAAATATCCGAACATGAGATC
1 CGCAGGCTATATGCTGGAAAAATATCGGGTTA-AAGACC
* * * * * * **
16112860 TGTAGGCTATATGCTAGAAATATATCTGGACTT-GAGGTC
1 CGCAGGCTATATGCTGGAAAAATATC-GG-GTTAAAGACC
* *
16112899 CGCAGGCTATGTGCT-GCAAAATATTCGGGTTAAAGACC
1 CGCAGGCTATATGCTGGAAAAATA-TCGGGTTAAAGACC
16112937 CGCAGGCT-TATGCT
1 CGCAGGCTATATGCT
16112951 AGTAATGTAT
Statistics
Matches: 100, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
37 7 0.07
38 23 0.23
39 69 0.69
40 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (38 bp):
CGCAGGCTATATGCTGGAAAAATATCGGGTTAAAGACC
Found at i:16118021 original size:29 final size:29
Alignment explanation
Indices: 16117988--16118061 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
16117978 GTGACGAGAT
16117988 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
16118017 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
16118046 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16118062 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:16118077 original size:29 final size:29
Alignment explanation
Indices: 16118045--16118120 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
16118035 CTGGAAATAT
* *
16118045 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
16118074 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
16118103 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
16118121 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:16118088 original size:58 final size:58
Alignment explanation
Indices: 16117988--16118120 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
16117978 GTGACGAGAT
* * * * * *
16117988 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
16118046 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
16118104 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
16118121 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:16120807 original size:39 final size:39
Alignment explanation
Indices: 16120752--16120878 Score: 218
Period size: 39 Copynumber: 3.2 Consensus size: 39
16120742 GTATGAGATT
16120752 GAAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAAA-ATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
16120792 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTG
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
16120831 GAAAAATATCCGGACTTGAGGTCCGCAGGCTATGTGCTG
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
16120870 GAAAAATAT
1 GAAAAATAT
16120879 TTGGGTTAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 78 0.94
40 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:16121096 original size:2 final size:2
Alignment explanation
Indices: 16121089--16121117 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16121079 TCAAAGAACG
16121089 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16121118 GTGTGTGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16122075 original size:31 final size:31
Alignment explanation
Indices: 16122032--16122146 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
16122022 TTAGTCTTAA
16122032 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
16122062 CATATCTCTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
16122093 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
16122124 CTTATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
16122147 ACTGTAAACA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.06
31 74 0.94
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:16122435 original size:25 final size:25
Alignment explanation
Indices: 16122360--16122435 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 25
16122350 GCCTAGCCTC
*
16122360 TTTTAATAAA-TGGGGCAAAGCCCT
1 TTTTGATAAACTGGGGCAAAGCCCT
*
16122384 TTCTGATAAACTGGGGCAAAG-CCT
1 TTTTGATAAACTGGGGCAAAGCCCT
*
16122408 TTTTCGGTAAACTGGGGC-AAGCCCT
1 TTTT-GATAAACTGGGGCAAAGCCCT
16122433 TTT
1 TTT
16122436 AGCACTTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
24 17 0.38
25 28 0.62
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
TTTTGATAAACTGGGGCAAAGCCCT
Found at i:16123392 original size:27 final size:27
Alignment explanation
Indices: 16123362--16123447 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
16123352 GTAAATCTAC
16123362 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
16123389 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
16123415 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
16123445 AAA
1 AAA
16123448 TTAGGGGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.43
28 7 0.14
29 20 0.39
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:16123466 original size:27 final size:27
Alignment explanation
Indices: 16123449--16123575 Score: 177
Period size: 27 Copynumber: 4.7 Consensus size: 27
16123439 TTTTGTAAAT
16123449 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
16123475 TTGAGGGTATTTTGGTAATTTGT-CAAAC
1 TAG-GGGTATTTTGGTAATTT-TACAAAC
* * * *
16123503 TAGTGCTATTTCGGTAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
16123530 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
16123557 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
16123576 CTATCTTACA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
26 2 0.02
27 82 0.94
28 3 0.03
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:16123594 original size:81 final size:81
Alignment explanation
Indices: 16123449--16123608 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 81
16123439 TTTTGTAAAT
* * *
16123449 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTGTCAAACTAGTGCTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTATCAAACTAGGGCTATTT
*
16123514 CGGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
** *
16123530 TAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTCTATCTTAC-AGGGGTAT
1 TAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTTGGTAATT-TATCAAACTAGGGCTAT
16123593 TTCAGTAATTTCACAA
64 TTCAGTAATTTCACAA
16123609 TTGAGGGTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 63 0.90
82 7 0.10
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTATCAAACTAGGGCTATTT
CAGTAATTTCACAAAC
Found at i:16123640 original size:27 final size:27
Alignment explanation
Indices: 16123611--16123804 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
16123601 TTTCACAATT
16123611 GAGGGTAAAA-GAGTAATTTTGTAAA-C
1 GAGGGTAAAACG-GTAATTTTGTAAATC
*
16123637 TGAGGGTAAAATGGTAATTTTGTAAATC
1 -GAGGGTAAAACGGTAATTTTGTAAATC
* * *
16123665 GAGCGTAAAACGTTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * * *
16123692 GAGGGCAAAATGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
16123719 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * *
16123746 GAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * * **
16123773 GTGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
16123800 GAGGG
1 GAGGG
16123805 CATTTCAGTA
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
27 142 0.99
28 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTTTGTAAATC
Found at i:16123688 original size:54 final size:54
Alignment explanation
Indices: 16123611--16123804 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
16123601 TTTCACAATT
* * *
16123611 GAGGGTAAAA-GAGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATC
1 GAGGGTAAAACG-GTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATAAATC
* * *
16123665 GAGCGTAAAACGTTAATTCTGTAAATCGAGGGCAAAATGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC
* * *
16123719 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC
* * **
16123773 GTGGGTAAAATGGTAATTCTACAAATCGAGGG
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGG
16123805 CATTTCAGTA
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
54 119 0.98
55 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (54 bp):
GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC
Found at i:16123724 original size:81 final size:81
Alignment explanation
Indices: 16123638--16123804 Score: 262
Period size: 81 Copynumber: 2.1 Consensus size: 81
16123628 TTTGTAAACT
* * *
16123638 GAGGGTAAAATGGTAATTTTGTAAATCGAGCGTAAAACGTTAATTCTGTAAATCGAGGGCAAAAT
1 GAGGGTAAAACGGTAATTTTGTAAATCGAGCGTAAAACGGTAATTCTATAAATCGAGGGCAAAAT
*
16123703 GGTAATTCTATAAATC
66 GGTAATTCTACAAATC
* * * *
16123719 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGTGGGTAAAAT
1 GAGGGTAAAACGGTAATTTTGTAAATCGAGCGTAAAACGGTAATTCTATAAATCGAGGGCAAAAT
16123784 GGTAATTCTACAAATC
66 GGTAATTCTACAAATC
16123800 GAGGG
1 GAGGG
16123805 CATTTCAGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (81 bp):
GAGGGTAAAACGGTAATTTTGTAAATCGAGCGTAAAACGGTAATTCTATAAATCGAGGGCAAAAT
GGTAATTCTACAAATC
Found at i:16123816 original size:81 final size:81
Alignment explanation
Indices: 16123650--16123824 Score: 233
Period size: 81 Copynumber: 2.2 Consensus size: 81
16123640 GGGTAAAATG
* * *
16123650 GTAATTTTGTAAATCGAGCGTAAAACGTTAATTCTGTAAATCGAGGGCAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGCGTAAAACGGTAATTCTATAAATCGAGGGCAAAATGGTAATTCTACA
* *
16123715 AATCGAGGGTAAAACG
66 AATCGAGGGCAAAACA
* * * *
16123731 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGTGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGCGTAAAACGGTAATTCTATAAATCGAGGGCAAAATGGTAATTCTACA
***
16123796 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
16123812 GTAATTTGGTAAA
1 GTAATTTTGTAAA
16123825 CTAAAGTATT
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGCGTAAAACGGTAATTCTATAAATCGAGGGCAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:16124912 original size:27 final size:27
Alignment explanation
Indices: 16124882--16124935 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16124872 TAATGACAAG
16124882 CTTTAATAGTATGAATTGCTTAAAACT
1 CTTTAATAGTATGAATTGCTTAAAACT
16124909 CTTTAATAGTATGAATTGCTTAAAACT
1 CTTTAATAGTATGAATTGCTTAAAACT
16124936 TACTAAGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (27 bp):
CTTTAATAGTATGAATTGCTTAAAACT
Found at i:16129712 original size:55 final size:55
Alignment explanation
Indices: 16129599--16129706 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 55
16129589 CTACAATTGT
*
16129599 AAGTCAGGCTCAAGCACGGCCAAGGCACACGGGCGTGTGGTTAGCCGTGTGGCCC
1 AAGTCAGGCTCAAGCACGGCCAAGGCACACGGGCGTGTCGTTAGCCGTGTGGCCC
* ** * *
16129654 AAGTCAGGCTC-AGCCATGGCCAAGGCACTTGGGCGTGTCTTGTGGCCGTGTGG
1 AAGTCAGGCTCAAG-CACGGCCAAGGCACACGGGCGTGTCGT-TAGCCGTGTGG
16129707 TCAAGTTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 2 0.04
55 33 0.73
56 10 0.22
ACGTcount: A:0.18, C:0.27, G:0.37, T:0.19
Consensus pattern (55 bp):
AAGTCAGGCTCAAGCACGGCCAAGGCACACGGGCGTGTCGTTAGCCGTGTGGCCC
Found at i:16133468 original size:40 final size:40
Alignment explanation
Indices: 16133404--16133507 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
16133394 AGCCCGGATA
* * * * *
16133404 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCTCGGAAT
1 TAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCGAAAT
16133444 TAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCGAAAT
1 TAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCGAAAT
*
16133484 TAGTCACGAGCACAAATGCCTTCG
1 TAGTCACTAGCACAAATGCCTTCG
16133508 TTATCGTCCG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCGAAAT
Found at i:16141393 original size:40 final size:40
Alignment explanation
Indices: 16141331--16141573 Score: 343
Period size: 40 Copynumber: 6.2 Consensus size: 40
16141321 AAACCAAGTA
* * *
16141331 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
16141370 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16141410 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16141450 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
16141490 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * **
16141530 CCTTC-GGACTTAGCCCGAAT-TAGTCACGAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16141568 CCTTCG
1 CCTTCG
16141574 TTATCATCCG
Statistics
Matches: 190, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
38 22 0.12
39 27 0.14
40 141 0.74
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:16145917 original size:30 final size:30
Alignment explanation
Indices: 16145862--16146021 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
16145852 ATAGTGAATC
16145862 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
16145891 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
16145921 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
16145950 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
16145978 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
16146008 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16146022 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:16145954 original size:59 final size:57
Alignment explanation
Indices: 16145862--16146021 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
16145852 ATAGTGAATC
*
16145862 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
16145921 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
16145978 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
16146022 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:16153615 original size:17 final size:15
Alignment explanation
Indices: 16153593--16153627 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
16153583 ATATTTGAGG
16153593 CATTTTCACACACAACT
1 CATTTTCAC-CACAA-T
16153610 CATTTTCACCACAAT
1 CATTTTCACCACAAT
16153625 CAT
1 CAT
16153628 ACAATTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 5 0.28
17 9 0.50
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (15 bp):
CATTTTCACCACAAT
Found at i:16153852 original size:30 final size:30
Alignment explanation
Indices: 16153797--16153956 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
16153787 ATAGTGAATC
16153797 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
16153826 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
16153856 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
16153885 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
16153913 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
16153943 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16153957 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:16153889 original size:59 final size:57
Alignment explanation
Indices: 16153797--16153956 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
16153787 ATAGTGAATC
*
16153797 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
16153856 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
16153913 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
16153957 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:16157514 original size:55 final size:56
Alignment explanation
Indices: 16157384--16157518 Score: 236
Period size: 56 Copynumber: 2.4 Consensus size: 56
16157374 TCCCAGACAA
*
16157384 GGTCTTACTCGCACACATATATCAGAGTCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCAATGCCAACGTATTAAACGT
*
16157440 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAAC-TATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCAATGCCAACGTATTAAACGT
*
16157495 GGTCTTACTCGCCCACATATATCG
1 GGTCTTACTCGCACACATATATCG
16157519 ATGCCATGGT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
55 33 0.43
56 43 0.57
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCAATGCCAACGTATTAAACGT
Found at i:16158223 original size:34 final size:34
Alignment explanation
Indices: 16158171--16158251 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
16158161 TTAGCGCCTC
**
16158171 TTTCAGTAGTAGTAGCAGTCTGGGCCTGAGCCCA
1 TTTCAGTAACAGTAGCAGTCTGGGCCTGAGCCCA
* *
16158205 TTTCAGTAACAGTGGCAGTCTGGGCCTTAGCCCA
1 TTTCAGTAACAGTAGCAGTCTGGGCCTGAGCCCA
16158239 TTTCAGT-ACAGTA
1 TTTCAGTAACAGTA
16158252 TGCAAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 5 0.12
34 37 0.88
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.28
Consensus pattern (34 bp):
TTTCAGTAACAGTAGCAGTCTGGGCCTGAGCCCA
Found at i:16161556 original size:14 final size:16
Alignment explanation
Indices: 16161530--16161562 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16161520 TAGATCACGA
16161530 AAATTTCACACAT-AT
1 AAATTTCACACATAAT
16161545 AAATTT-ACACATAAT
1 AAATTTCACACATAAT
16161560 AAA
1 AAA
16161563 CACAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTTCACACATAAT
Found at i:16166105 original size:46 final size:46
Alignment explanation
Indices: 16166042--16166302 Score: 190
Period size: 46 Copynumber: 5.6 Consensus size: 46
16166032 CACAAGGCTA
*
16166042 ATGCATGT-CCTAAACATGTCTTACACTAGTTCTCATCTAAATGCCG
1 ATGCATGTCCCT-GACATGTCTTACACTAGTTCTCATCTAAATGCCG
* * * * * *
16166088 ATGCATATCCCTGACATGTCTTACACTGGCTT-TAATATCTCAAGGCTG
1 ATGCATGTCCCTGACATGTCTTACACTAG-TTCT--CATCTAAATGCCG
* * * * *
16166136 ATGCATGTTCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCATGTCCCTGACATGTCTTACACTAGTTCTCATCTAAATGCCG
* * * * **
16166182 ATACATGTCCTTGACATGTCTTACACTAGCTTAAAT-ATCTCGAA-GTTG
1 ATGCATGTCCCTGACATGTCTTACACTAG-TT--CTCATCT-AAATGCCG
* ** * * *
16166230 ATTCATGTCCCAAACATGTCTTGCACTAGCTCTCGTC-ACAATGCCG
1 ATGCATGTCCCTGACATGTCTTACACTAGTTCTCATCTA-AATGCCG
16166276 ATGCATGTCCCTGACATGTCTTACACT
1 ATGCATGTCCCTGACATGTCTTACACT
16166303 GGCTTAAATA
Statistics
Matches: 162, Mismatches: 41, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
45 3 0.02
46 84 0.52
47 8 0.05
48 64 0.40
49 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (46 bp):
ATGCATGTCCCTGACATGTCTTACACTAGTTCTCATCTAAATGCCG
Found at i:16166141 original size:94 final size:94
Alignment explanation
Indices: 16166029--16166353 Score: 431
Period size: 94 Copynumber: 3.5 Consensus size: 94
16166019 CTAGCTTGTC
* * * *
16166029 TATCACAAGGCTAATGCATG-TCCTAAACATGTCTTACACTAGTTCTCATCTAAATGCCGATGCA
1 TATCTCAAGGCTGATGCATGTTCC-AAACATGTCTTACACTAGCTCTCGTCTAAATGCCGATGCA
* *
16166093 TATCCCTGACATGTCTTACACTGGCTTTAA
65 TGTCCCTGACATGTCTTACACTGGCTTAAA
* * *
16166123 TATCTCAAGGCTGATGCATGTTCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATACAT
1 TATCTCAAGGCTGATGCATGTTCCAAACATGTCTTACACTAGCTCTCGTCTAAATGCCGATGCAT
* *
16166188 GTCCTTGACATGTCTTACACTAGCTTAAA
66 GTCCCTGACATGTCTTACACTGGCTTAAA
* * * *
16166217 TATCTCGAA-GTTGATTCATGTCCCAAACATGTCTTGCACTAGCTCTCGTC-ACAATGCCGATGC
1 TATCTC-AAGGCTGATGCATGTTCCAAACATGTCTTACACTAGCTCTCGTCTA-AATGCCGATGC
16166280 ATGTCCCTGACATGTCTTACACTGGCTTAAA
64 ATGTCCCTGACATGTCTTACACTGGCTTAAA
** * *
16166311 TATCTCGGGGCCGATGCATGTTCCAGACATGTCTTACACTAGC
1 TATCTCAAGGCTGATGCATGTTCCAAACATGTCTTACACTAGC
16166354 ACACATATCG
Statistics
Matches: 199, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
94 194 0.97
95 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (94 bp):
TATCTCAAGGCTGATGCATGTTCCAAACATGTCTTACACTAGCTCTCGTCTAAATGCCGATGCAT
GTCCCTGACATGTCTTACACTGGCTTAAA
Found at i:16166362 original size:48 final size:48
Alignment explanation
Indices: 16165997--16166362 Score: 237
Period size: 48 Copynumber: 7.8 Consensus size: 48
16165987 AAGCTGACAC
* * * ** * **
16165997 CATGTCCCAAACAGGTTTTACACTAGCTTGTC-TATCACAAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCACATATCTCAAGGCCGATG
* * * * * *
16166045 CATGTCCTAAACATGTCTTACACTAGTTCTC--ATCTAAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCACATATCTCAAGGCCGATG
* * * * *
16166091 CATATCCCTGACATGTCTTACACTGGCTTTA-ATATCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCACATATCTCAAGGCCGATG
* * * * *
16166139 CATGTTCCAGACATGTCTTACACTAGCTCTC--GTCTCAATGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTCACATATCTCAAGGCCGATG
** * * ** *
16166185 CATGTCCTTGACATGTCTTACACTAGCTTAAATATCTCGAA-GTTGATT
1 CATGTCCCAGACATGTCTTACACTAGCTCACATATCTC-AAGGCCGATG
* * * * * *
16166233 CATGTCCCAAACATGTCTTGCACTAGCTCTC--GTCACAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCACATATCTCAAGGCCGATG
* * * * **
16166279 CATGTCCCTGACATGTCTTACACTGGCTTAAATATCTCGGGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCACATATCTCAAGGCCGATG
* *
16166327 CATGTTCCAGACATGTCTTACACTAGCACACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTCACATATC
16166363 GCCTAATATC
Statistics
Matches: 237, Mismatches: 71, Indels: 20
0.72 0.22 0.06
Matches are distributed among these distances:
45 2 0.01
46 98 0.41
47 5 0.02
48 130 0.55
49 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCACATATCTCAAGGCCGATG
Found at i:16170498 original size:32 final size:32
Alignment explanation
Indices: 16170461--16170526 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
16170451 TAAATGTTGG
16170461 TAACATAGTTATTATTTTAAATGTTTTAATGT
1 TAACATAGTTATTATTTTAAATGTTTTAATGT
16170493 TAACATAGTTATTATTTTAAATGTTTTAATGT
1 TAACATAGTTATTATTTTAAATGTTTTAATGT
16170525 TA
1 TA
16170527 TTTAAATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (32 bp):
TAACATAGTTATTATTTTAAATGTTTTAATGT
Found at i:16170806 original size:46 final size:45
Alignment explanation
Indices: 16170744--16171105 Score: 286
Period size: 46 Copynumber: 7.8 Consensus size: 45
16170734 TATTTGGGCA
16170744 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
16170790 TCCGAACGCGTGGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
16170837 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
16170883 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
16170930 TCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
16170976 CCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
16171023 TCTGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
16171069 CCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16171106 GCGGGTTACA
Statistics
Matches: 243, Mismatches: 52, Indels: 42
0.72 0.15 0.12
Matches are distributed among these distances:
43 3 0.01
44 9 0.04
45 3 0.01
46 123 0.51
47 90 0.37
48 3 0.01
49 9 0.04
50 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:16170859 original size:47 final size:47
Alignment explanation
Indices: 16170802--16171051 Score: 244
Period size: 47 Copynumber: 5.4 Consensus size: 47
16170792 CGAACGCGTG
*
16170802 GAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTT
1 GAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCTGAGCTCGTT
*** * * *
16170849 GAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCTGAACTCGTT
1 GAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCTGAGCTCGTT
16170895 GAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCTGAGCTCGTT
1 GAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCTGAGCTCGTT
* *** * * * * * *
16170942 GAGTTGAGTCTGAGTTC-ACTTATGGATGCGAACGC--CCGAACTCGTT
1 GAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGCATCTGAGCTCGTT
*
16170988 GAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCTGAGCTTGTT
1 GAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCTGAGCTCGTT
16171035 GAGTTGAGTCCGAGTTC
1 GAGTTGAGTCCGAGTTC
16171052 ACTTATGGAT
Statistics
Matches: 157, Mismatches: 34, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 4 0.03
46 62 0.39
47 79 0.50
48 4 0.03
49 3 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (47 bp):
GAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCTGAGCTCGTT
Found at i:16171125 original size:93 final size:93
Alignment explanation
Indices: 16170740--16171097 Score: 599
Period size: 93 Copynumber: 3.8 Consensus size: 93
16170730 AGGATATTTG
* * * * * *
16170740 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACGCGTGGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16170805 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
16170833 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16170898 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
16170926 GGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16170991 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
16171019 GGCATCTGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
16171084 TTGAGTTCGAGTTC
66 TTGAGTCCGAGTTC
16171098 ACTTATGGGC
Statistics
Matches: 253, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 253 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16173430 original size:40 final size:40
Alignment explanation
Indices: 16173375--16173582 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
16173365 TGAATGATAC
* *
16173375 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
16173415 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
16173455 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
16173495 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
16173535 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
16173575 CC-GGCTAA
1 CCGGGCTAA
16173583 ATTCCGAAAG
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:16181669 original size:40 final size:40
Alignment explanation
Indices: 16181612--16181859 Score: 295
Period size: 40 Copynumber: 6.2 Consensus size: 40
16181602 TGAATGATAC
16181612 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
*
16181652 CTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
16181692 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* ** *
16181732 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
* * * * * **
16181772 CTGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCA-ACT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATA-T
* * * * * *
16181812 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
16181852 CC-GGCTAA
1 CCGGGCTAA
16181860 ATTTCGAAGA
Statistics
Matches: 182, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
39 7 0.04
40 172 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:16188662 original size:40 final size:40
Alignment explanation
Indices: 16188617--16188783 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16188607 CGGAATATAA
16188617 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
16188657 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
16188697 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16188737 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16188776 CCGGATAT
1 CCGGATAT
16188784 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16188767 original size:80 final size:79
Alignment explanation
Indices: 16188617--16188783 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
16188607 CGGAATATAA
* *
16188617 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
16188682 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
16188697 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
16188759 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
16188776 CCGGATAT
1 CCGGATAT
16188784 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:16189630 original size:17 final size:19
Alignment explanation
Indices: 16189607--16189652 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
16189597 AAGAAGCATG
16189607 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
16189625 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
16189643 AATCATGCTC
1 AATCATGCTC
16189653 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:16195483 original size:27 final size:28
Alignment explanation
Indices: 16195427--16195496 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
16195417 AAATTTGTAC
16195427 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
16195455 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
16195482 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16195497 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:16195507 original size:27 final size:27
Alignment explanation
Indices: 16195427--16195508 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
16195417 AAATTTGTAC
* *
16195427 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
16195455 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
16195482 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
16195509 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:16203310 original size:27 final size:28
Alignment explanation
Indices: 16203254--16203323 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
16203244 AAATTTGTAC
16203254 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
16203282 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
16203309 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16203324 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:16203334 original size:27 final size:27
Alignment explanation
Indices: 16203254--16203335 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
16203244 AAATTTGTAC
* *
16203254 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
16203282 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
16203309 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
16203336 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:16204941 original size:27 final size:27
Alignment explanation
Indices: 16204887--16205061 Score: 228
Period size: 27 Copynumber: 6.5 Consensus size: 27
16204877 GGGCAAAATG
* * *
16204887 GTAATTTTACCCCAC-GAGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
16204913 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16204940 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
16204966 GATAATTCTATCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
16204994 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
16205021 GTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
16205048 GTAAGTCTACCCTA
1 GTAATTCTACCCTA
16205062 TAAGGGTGTG
Statistics
Matches: 129, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
26 14 0.11
27 114 0.88
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:16205076 original size:54 final size:53
Alignment explanation
Indices: 16204904--16205080 Score: 246
Period size: 54 Copynumber: 3.3 Consensus size: 53
16204894 TACCCCACGA
* * *
16204904 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACCCTATAAG
* *
16204958 GGTATTTCGATAATTCTATCCTACAGGGGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACCCTATAAG
* *
16205012 GGTATTTCGGTAATTCTACCTTACAAGGGTATTTCAGTAAGTCTACCCTATAAG
1 GGTATTTCGGTAATTCTACC-TACAGGGGTATTTCAGTAATTCTACCCTATAAG
* *
16205066 GGTGTGTCGGTAATT
1 GGTATTTCGGTAATT
16205081 TTGTAAATCG
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
53 2 0.02
54 108 0.98
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (53 bp):
GGTATTTCGGTAATTCTACCTACAGGGGTATTTCAGTAATTCTACCCTATAAG
Found at i:16205078 original size:27 final size:27
Alignment explanation
Indices: 16204904--16205080 Score: 192
Period size: 27 Copynumber: 6.6 Consensus size: 27
16204894 TACCCCACGA
* * *
16204904 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAAG
* * *
16204931 GGTATTTCAGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTATAAG
* * * *
16204958 GGTATTTCGATAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAAG
* *
16204985 GGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTATAAG
* *
16205012 GGTATTTCGGTAATTCTACCTTACAAG
1 GGTATTTCGGTAATTCTACCCTATAAG
* *
16205039 GGTATTTCAGTAAGTCTACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTATAAG
* *
16205066 GGTGTGTCGGTAATT
1 GGTATTTCGGTAATT
16205081 TTGTAAATCG
Statistics
Matches: 127, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTATAAG
Found at i:16205079 original size:81 final size:81
Alignment explanation
Indices: 16204904--16205080 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
16204894 TACCCCACGA
* *
16204904 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATGTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
* * *
16204969 AATTCTATCCTACAGG
66 AAGTCTACCCTACAAG
* * * *
16204985 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTC-AG
1 GGTATGTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA-
*
16205049 TAAGTCTACCCTATAAG
65 TAAGTCTACCCTACAAG
* *
16205066 GGTGTGTCGGTAATT
1 GGTATGTCAGTAATT
16205081 TTGTAAATCG
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 83 0.99
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (81 bp):
GGTATGTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
AAGTCTACCCTACAAG
Found at i:16205131 original size:27 final size:26
Alignment explanation
Indices: 16205074--16205313 Score: 155
Period size: 27 Copynumber: 9.0 Consensus size: 26
16205064 AGGGTGTGTC
* * ***
16205074 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGCAAATCAAGGGT-ATTT
*
16205101 GGTAATTTTGTAAATCAAGGGTACTTT
1 GGTAATTTTGCAAATCAAGGGTA-TTT
* *
16205128 GGTAATTTTACAAGTCGAA-GGTATTTT
1 GGTAATTTTGCAAATC-AAGGGTA-TTT
* * *
16205155 AGTAATTTTACAAATC-GGGGTATTTT
1 GGTAATTTTGCAAATCAAGGGTA-TTT
* *
16205181 AGTAATTTTGCAAATC-GGAGGTATTT
1 GGTAATTTTGCAAATCAAG-GGTATTT
* **
16205207 CAGTAATTTTGCAAATCGGGGGTATTT
1 -GGTAATTTTGCAAATCAAGGGTATTT
*
16205234 CGGTAATTTTACAAATC-AGAGGTATTT
1 -GGTAATTTTGCAAATCAAG-GGTATTT
* *
16205261 CGGTAATTTTACAAACCAAGGGTATTTT
1 -GGTAATTTTGCAAATCAAGGGTA-TTT
* * *
16205289 GGTAATTTTGTAAACCAAAGGTATT
1 GGTAATTTTGCAAATCAAGGGTATT
16205314 CTAAACAGGG
Statistics
Matches: 185, Mismatches: 19, Indels: 19
0.83 0.09 0.09
Matches are distributed among these distances:
26 32 0.17
27 144 0.78
28 9 0.05
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (26 bp):
GGTAATTTTGCAAATCAAGGGTATTT
Found at i:16205203 original size:53 final size:54
Alignment explanation
Indices: 16205102--16205297 Score: 241
Period size: 54 Copynumber: 3.6 Consensus size: 54
16205092 GGGTAAAACG
** * * * * *
16205102 GTAATTTTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTTA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCA
* *
16205156 GTAATTTTACAAATC-GGGGTATTTTAGTAATTTTGCAAATCGGAGGTATTTCA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCA
* * * * *
16205209 GTAATTTTGCAAATCGGGGGTATTTCGGTAATTTTACAAATCAGAGGTATTTCG
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCA
* *
16205263 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTT
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTT
16205298 GTAAACCAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 45 0.37
54 76 0.63
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCA
Found at i:16208218 original size:42 final size:40
Alignment explanation
Indices: 16208166--16208290 Score: 124
Period size: 42 Copynumber: 3.0 Consensus size: 40
16208156 ATCCGATATG
*
16208166 TGTTATCGTGTAAGACAACGCCTGGGACATTGGCATCGTATT
1 TGTT-TCGTGTAAGAC-ACGTCTGGGACATTGGCATCGTATT
* * * * *
16208208 TGATTTCGTGTAAGACCCTATTTGGGATAGTGGCATCGTATT
1 TG-TTTCGTGTAAGACAC-GTCTGGGACATTGGCATCGTATT
* *
16208250 TGTTTACATGTAAGACCACGTCTGGGACATTGGCATTGTAT
1 TGTTT-CGTGTAAGA-CACGTCTGGGACATTGGCATCGTAT
16208291 GAGCTTTCCA
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.06
42 58 0.88
43 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (40 bp):
TGTTTCGTGTAAGACACGTCTGGGACATTGGCATCGTATT
Found at i:16219206 original size:23 final size:24
Alignment explanation
Indices: 16219179--16219231 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
16219169 TACTATTTTT
**
16219179 AGCTCGTTGGAGCTTACCGTT-TC
1 AGCTCGTAAGAGCTTACCGTTCTC
* *
16219202 AGCTCATAAGAGCTTACTGTTCTC
1 AGCTCGTAAGAGCTTACCGTTCTC
16219226 AGCTCG
1 AGCTCG
16219232 CCAAAGTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACCGTTCTC
Found at i:16219277 original size:25 final size:25
Alignment explanation
Indices: 16219249--16219302 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
16219239 TTACCGCTTC
*
16219249 AGCTCAATAG-AGCTTATTGTTCATT
1 AGCTCAAGAGAAGCTTATTGTTCA-T
*
16219274 AGCTCAGGAGAAGCTTATTGTTCAT
1 AGCTCAAGAGAAGCTTATTGTTCAT
16219299 AGCT
1 AGCT
16219303 TGAAACAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTCAAGAGAAGCTTATTGTTCAT
Found at i:16219427 original size:19 final size:20
Alignment explanation
Indices: 16219405--16219444 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16219395 CAACCGGCAT
16219405 AAATACT-ATTATATGGATG
1 AAATACTGATTATATGGATG
* *
16219424 AAATACTGTTTATTTGGATG
1 AAATACTGATTATATGGATG
16219444 A
1 A
16219445 GCTACTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (20 bp):
AAATACTGATTATATGGATG
Found at i:16220876 original size:40 final size:40
Alignment explanation
Indices: 16220783--16220876 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
16220773 TGACTATTTG
*** * *
16220783 TGGCACTTAGTGTATTATTCGACATAGCTTTAGCTATATA
1 TGGCACTTAGTGTGCGACTCGACATAGCTTCAGCTATATA
*
16220823 TGGCACTTAGTGTGCGACTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGACTCGACATAGCTTCAGCTATATA
16220863 TGGCACTTAGTGTG
1 TGGCACTTAGTGTG
16220877 TGATTTGAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGACTCGACATAGCTTCAGCTATATA
Found at i:16227927 original size:40 final size:40
Alignment explanation
Indices: 16227799--16227909 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
16227789 CGGCTATTTG
*
16227799 TGGCACTTAGTGTGTGATTCGACATAGCTTCGACTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATATA
*
16227839 TGGCACTTAGTGTGCGATTCAACATAGCTTCGACTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATATA
* *
16227879 TGGCACTTAGTGTGCGATTTGAGATAGCTTC
1 TGGCACTTAGTGTGCGATTCGACATAGCTTC
16227910 AGCTATGTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATATA
Found at i:16227974 original size:28 final size:28
Alignment explanation
Indices: 16227919--16227975 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
16227909 CAGCTATGTG
* * *
16227919 TGACACTTAATGTGTGAGATATTGAGTA
1 TGACACTTAATGTGCGAGACATTAAGTA
* *
16227947 TGACACTTAGTGTGCGAGGCATTAAGTA
1 TGACACTTAATGTGCGAGACATTAAGTA
16227975 T
1 T
16227976 TCAATGGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (28 bp):
TGACACTTAATGTGCGAGACATTAAGTA
Found at i:16230231 original size:40 final size:40
Alignment explanation
Indices: 16230187--16230262 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
16230177 AATTAATGAT
16230187 TAAATTCCTTAATTTAATCAATTCACAACCTTTACCTAAC
1 TAAATTCCTTAATTTAATCAATTCACAACCTTTACCTAAC
*
16230227 TAAATTCCTTAATTTAATCAATTCATAACCTTTACC
1 TAAATTCCTTAATTTAATCAATTCACAACCTTTACC
16230263 CAACAACTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (40 bp):
TAAATTCCTTAATTTAATCAATTCACAACCTTTACCTAAC
Found at i:16242602 original size:27 final size:27
Alignment explanation
Indices: 16242534--16242604 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
16242524 CGACTTGTAA
* *
16242534 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
16242561 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
16242588 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
16242605 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:16242611 original size:27 final size:27
Alignment explanation
Indices: 16242588--16242711 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
16242578 CAATTTACAG
16242588 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
16242615 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
16242642 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
16242669 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
16242696 AATTACTAAAATACCC
1 AATTACCAAAATACCC
16242712 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:16242630 original size:54 final size:53
Alignment explanation
Indices: 16242572--16242711 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
16242562 ATTACCGTTT
16242572 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
16242626 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
16242680 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
16242712 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:16242723 original size:81 final size:81
Alignment explanation
Indices: 16242588--16242740 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
16242578 CAATTTACAG
* **
16242588 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
16242653 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
16242669 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
16242732 AATACCCTT
64 AATACCCTT
16242741 GTGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:16242724 original size:27 final size:27
Alignment explanation
Indices: 16242694--16242755 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
16242684 CATGGTTTGA
16242694 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
16242721 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
16242748 AAAATTAC
1 AAAATTAC
16242756 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:16242724 original size:54 final size:54
Alignment explanation
Indices: 16242588--16242738 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
16242578 CAATTTACAG
* ** * * *
16242588 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
16242642 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
16242696 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
16242739 TTGTGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:16243407 original size:28 final size:28
Alignment explanation
Indices: 16243375--16243433 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
16243365 GCGTAGATCA
16243375 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
16243403 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
16243431 CGA
1 CGA
16243434 TATACCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:16246730 original size:27 final size:27
Alignment explanation
Indices: 16246662--16246732 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
16246652 CGACTTGTAA
* *
16246662 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
16246689 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
16246716 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
16246733 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:16246739 original size:27 final size:27
Alignment explanation
Indices: 16246716--16246839 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
16246706 CAATTTACAG
16246716 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
16246743 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
16246770 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
16246797 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
16246824 AATTACTAAAATACCC
1 AATTACCAAAATACCC
16246840 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:16246758 original size:54 final size:53
Alignment explanation
Indices: 16246700--16246839 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
16246690 ATTACCGTTT
16246700 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
16246754 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
16246808 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
16246840 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Done.