Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 520 of 770
Found at i:161428560 original size:40 final size:39
Alignment explanation
Indices: 161428457--161428585 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
161428447 TGCTGGAAAT
* * *
161428457 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
161428497 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
161428537 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
161428577 TATATCCGG
1 TATATCCGG
161428586 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:161435725 original size:40 final size:39
Alignment explanation
Indices: 161435560--161435743 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
161435550 AAATTGAATG
* * *
161435560 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
161435600 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
161435640 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
161435680 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
161435719 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
161435744 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:161435768 original size:80 final size:81
Alignment explanation
Indices: 161435600--161435788 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
161435590 GCTGGAAATT
* * * *
161435600 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
161435665 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
161435681 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
161435744 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
161435760 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
161435789 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:161438270 original size:6 final size:6
Alignment explanation
Indices: 161438259--161438384 Score: 111
Period size: 6 Copynumber: 20.8 Consensus size: 6
161438249 AACCAAAATG
*
161438259 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
161438307 AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* *
161438355 AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAAT--C AGAATC AGAATC AGAAT
161438385 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
5 9 0.09
6 81 0.82
7 6 0.06
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:161438274 original size:30 final size:29
Alignment explanation
Indices: 161438238--161438384 Score: 144
Period size: 30 Copynumber: 5.1 Consensus size: 29
161438228 AAGAAACATT
* * *
161438238 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
161438268 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
161438298 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
161438328 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
* *
161438358 ATTAG----GTGACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
161438383 AT
1 AT
161438385 GTGAATGCAA
Statistics
Matches: 106, Mismatches: 7, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
25 21 0.20
29 1 0.01
30 81 0.76
31 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:161438539 original size:27 final size:26
Alignment explanation
Indices: 161438502--161438567 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
161438492 AGCATGGCTG
*
161438502 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
161438528 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
161438555 CCAGAATCAGATA
1 CCAGAA-CAGATA
161438568 ATGGCAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:161438785 original size:22 final size:22
Alignment explanation
Indices: 161438737--161438795 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
161438727 GTAAATACGT
*
161438737 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
161438759 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
161438781 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
161438796 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:161438954 original size:27 final size:26
Alignment explanation
Indices: 161438881--161438962 Score: 103
Period size: 26 Copynumber: 3.1 Consensus size: 26
161438871 TCGATCGGTC
* * *
161438881 AACAGATATTGTGACAGAGTCACTAG
1 AACAGATATTGTGGCAGAGCCACCAG
161438907 ATACA-ATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
161438933 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
161438960 AAC
1 AAC
161438963 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 3 0.06
26 23 0.47
27 23 0.47
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:161439207 original size:26 final size:27
Alignment explanation
Indices: 161439159--161439298 Score: 185
Period size: 27 Copynumber: 5.3 Consensus size: 27
161439149 GGGGCAAAAT
* * ** *
161439159 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
161439186 GGTAATTC-ACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
161439212 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
161439239 GATAATTCTACCCTAC-GGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
161439265 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
161439292 AGTAATT
1 GGTAATT
161439299 TCACAATCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
26 45 0.45
27 54 0.55
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:161439278 original size:53 final size:53
Alignment explanation
Indices: 161439159--161439291 Score: 187
Period size: 53 Copynumber: 2.5 Consensus size: 53
161439149 GGGGCAAAAT
* * * * *
161439159 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCACCCTACAGGGGTATTTC
*
161439212 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAC-GGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTC-ACCCTACAGGGGTATTTC
*
161439265 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
161439292 AGTAATTTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 64 0.90
54 7 0.10
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCACCCTACAGGGGTATTTC
Found at i:161439363 original size:27 final size:27
Alignment explanation
Indices: 161439303--161439813 Score: 589
Period size: 27 Copynumber: 19.2 Consensus size: 27
161439293 GTAATTTCAC
* *
161439303 AATCAAGGGTAGAACGGTAA-TTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
161439329 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
161439356 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * **
161439383 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
161439410 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
161439437 AATCGAGGGTAAAACGGTAATTCTG-A
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
161439463 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
161439490 AATCGAGGGTAAAATGATAA-TTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
161439516 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * **
161439543 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
161439570 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
161439597 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
161439624 AA-CTGAGGGTAAAACGGTAA-TTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
161439650 AA-CTGAGGGTAAAACAGTAA-TTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
161439676 AAT-GAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
161439702 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
**
161439729 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
161439756 AATTGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
161439783 AATCGAGGGTAAAACGGTAA-TTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
161439809 AATCG
1 AATCG
161439814 GGAGTACTTT
Statistics
Matches: 414, Mismatches: 56, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
25 17 0.04
26 112 0.27
27 281 0.68
28 4 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:161439484 original size:160 final size:160
Alignment explanation
Indices: 161439308--161439813 Score: 772
Period size: 160 Copynumber: 3.2 Consensus size: 160
161439298 TTCACAATCA
*
161439308 AGGGTAGAACGGTAATTTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAACCAG
1 AGGGTAAAACGGTAATTTGTAAATCGAGGGTAAAACGATAA-TTTGTAAACTGAGGGTAAACCAG
161439373 TAATTCTGTAAATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAA
65 TAATTCTGTAAATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAA
161439438 ATCGAGGGTAAAACGGTAATTCTG-AAACTG
130 ATCGAGGGTAAAACGGTAATTCTGTAAACTG
*
161439468 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTTGTAAACTGAGGGTAAACCAG
1 AGGGTAAAACGGTAATT-TGTAAATCGAGGGTAAAACGATAATTTGTAAACTGAGGGTAAACCAG
161439533 TAATTCTGTAAATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAA
65 TAATTCTGTAAATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAA
*
161439598 ATCGAGGGTAAAACAGTAATTCTGTAAACTG
130 ATCGAGGGTAAAACGGTAATTCTGTAAACTG
* *
161439629 AGGGTAAAACGGTAATTTGTAAA-CTGAGGGTAAAAC-AGTAATTTGTAAA-TGAGGGTAAAACG
1 AGGGTAAAACGGTAATTTGTAAATC-GAGGGTAAAACGA-TAATTTGTAAACTGAGGGTAAACCA
* * * * ** * **
161439691 GTAATTTTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAA
64 GTAATTCTGTAAATC-AAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGT
* *
161439755 AAATTGAGGGTAAAACGATAATTCTGTAAA-TCG
128 AAATCGAGGGTAAAACGGTAATTCTGTAAACT-G
161439788 AGGGTAAAACGGTAATTTGTAAATCG
1 AGGGTAAAACGGTAATTTGTAAATCG
161439814 GGAGTACTTT
Statistics
Matches: 321, Mismatches: 18, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
158 2 0.01
159 118 0.37
160 155 0.48
161 46 0.14
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (160 bp):
AGGGTAAAACGGTAATTTGTAAATCGAGGGTAAAACGATAATTTGTAAACTGAGGGTAAACCAGT
AATTCTGTAAATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAA
TCGAGGGTAAAACGGTAATTCTGTAAACTG
Found at i:161441836 original size:6 final size:6
Alignment explanation
Indices: 161441825--161441950 Score: 111
Period size: 6 Copynumber: 20.8 Consensus size: 6
161441815 AACCAAAATG
*
161441825 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
161441873 AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC
* *
161441921 AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAAT--C AGAATC AGAATC AGAAT
161441951 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
5 9 0.09
6 81 0.82
7 6 0.06
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:161441877 original size:30 final size:30
Alignment explanation
Indices: 161441825--161441950 Score: 167
Period size: 30 Copynumber: 4.4 Consensus size: 30
161441815 AACCAAAATG
*
161441825 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
161441855 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
161441885 AGAATC--AAT----ATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
161441909 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
161441940 AGAATCAGAAT
1 AGAATCAGAAT
161441951 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 2, Indels: 15
0.83 0.02 0.15
Matches are distributed among these distances:
24 21 0.24
26 3 0.03
28 3 0.03
29 1 0.01
30 37 0.43
31 21 0.24
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:161442104 original size:27 final size:26
Alignment explanation
Indices: 161442067--161442132 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
161442057 AGCATGGCTG
*
161442067 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
161442093 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
161442120 CCAGAATCAGATA
1 CCAGAA-CAGATA
161442133 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:161442137 original size:27 final size:27
Alignment explanation
Indices: 161442067--161442140 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
161442057 AGCATGGCTG
* *
161442067 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
161442093 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
161442120 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
161442141 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:161442147 original size:27 final size:27
Alignment explanation
Indices: 161442091--161442148 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
161442081 GTGACAGAGT
* * *
161442091 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
161442118 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
161442145 CACC
1 CACC
161442149 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:161442353 original size:22 final size:22
Alignment explanation
Indices: 161442305--161442363 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
161442295 GTAAATACGT
*
161442305 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
161442327 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
161442349 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
161442364 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:161442489 original size:27 final size:26
Alignment explanation
Indices: 161442450--161442532 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
161442440 TCGATCGGTC
* *
161442450 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
161442476 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
161442503 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
161442530 AAC
1 AAC
161442533 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:161442761 original size:27 final size:27
Alignment explanation
Indices: 161442731--161442924 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
161442721 GGGGCAAAAT
* * * *
161442731 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161442758 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161442785 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
161442812 GATAATTCTACCCTAC-GGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
161442838 GGTAATTCTA-CCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
161442864 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161442891 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161442918 AGTAATT
1 GGTAATT
161442925 TCACAATCAA
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
25 4 0.03
26 35 0.24
27 106 0.73
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:161442939 original size:53 final size:52
Alignment explanation
Indices: 161442774--161442931 Score: 178
Period size: 53 Copynumber: 3.0 Consensus size: 52
161442764 TCTACCCTAC
* **
161442774 AGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-GATAA-TTCTACCCT
1 AGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAG-TAATTTC-ACAAT
* * * *
161442826 ACGGGGTATTTCGGTAATTCTA-CCTATAAGGGTATTTTAGTAATTCTACCCTAT
1 A-GGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATT-T-CACAAT
*
161442880 AGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTCACAAT
1 AGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTTCACAAT
161442932 CAAGGGTAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
52 22 0.25
53 42 0.47
54 24 0.27
55 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (52 bp):
AGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTTCACAAT
Found at i:161442947 original size:106 final size:106
Alignment explanation
Indices: 161442759--161442952 Score: 259
Period size: 106 Copynumber: 1.8 Consensus size: 106
161442749 AGGTATCTCG
* *
161442759 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACA
* * ***
161442824 CTACGGGGTATTTCGGTAATTCTACCTATAAGGGTATTTTA
66 ATACAGGGTAAAACGGTAATTCTACCTATAAGGGTATTTTA
* *
161442865 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC-AGTAATT-TCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCT-A
161442928 CAAT-CAAGGGTAAAACGGTAATTCT
64 CAATAC-AGGGTAAAACGGTAATTCT
161442953 GTAAATCGAG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
105 3 0.04
106 73 0.96
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (106 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACA
ATACAGGGTAAAACGGTAATTCTACCTATAAGGGTATTTTA
Found at i:161442959 original size:27 final size:27
Alignment explanation
Indices: 161442929--161443435 Score: 661
Period size: 27 Copynumber: 19.2 Consensus size: 27
161442919 GTAATTTCAC
*
161442929 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
161442956 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
161442983 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
161443010 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161443037 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161443064 AATCGAGGGTAAAAC-GTAATTCTG-A
1 AATCGAGGGTAAAACGGTAATTCTGTA
161443089 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
161443116 AATCGAGGGTAAAA--GTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
161443141 AA-CTGAGGGT-AAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
161443167 AATCGAGGGTAAAAC-GTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161443193 AATCGAGGGTAAAACGGTAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161443219 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
161443246 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
161443273 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
161443300 AATCGAGGGTAAAAC-GTAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161443325 AA-CTGAGGGTAAAAC-GTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
161443351 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
161443378 AAT-GAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
161443404 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161443431 AATCG
1 AATCG
161443436 GGAGTACTTT
Statistics
Matches: 426, Mismatches: 34, Indels: 40
0.85 0.07 0.08
Matches are distributed among these distances:
24 6 0.01
25 56 0.13
26 131 0.31
27 230 0.54
28 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:161445454 original size:6 final size:6
Alignment explanation
Indices: 161445443--161445567 Score: 118
Period size: 6 Copynumber: 20.8 Consensus size: 6
161445433 AACCAAAATG
*
161445443 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AGAATC
*
161445490 AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC
* *
161445538 AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAAT--C AGAATC AGAATC AGAAT
161445568 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 24
0.76 0.06 0.18
Matches are distributed among these distances:
5 11 0.11
6 80 0.81
7 6 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:161445720 original size:27 final size:26
Alignment explanation
Indices: 161445683--161445748 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
161445673 AGCATGGCTG
*
161445683 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
161445709 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
161445736 CCAGAATCAGATA
1 CCAGAA-CAGATA
161445749 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:161445753 original size:27 final size:27
Alignment explanation
Indices: 161445683--161445756 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
161445673 AGCATGGCTG
* *
161445683 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
161445709 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
161445736 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
161445757 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:161445763 original size:27 final size:27
Alignment explanation
Indices: 161445707--161445764 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
161445697 GTGACAGAGT
* * *
161445707 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
161445734 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
161445761 CACC
1 CACC
161445765 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:161445969 original size:22 final size:22
Alignment explanation
Indices: 161445921--161445979 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
161445911 GTAAATACGT
*
161445921 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
161445943 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
161445965 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
161445980 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:161446106 original size:27 final size:26
Alignment explanation
Indices: 161446067--161446149 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
161446057 TCGATCGGTC
* *
161446067 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
161446093 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
161446120 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
161446147 AAC
1 AAC
161446150 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:161446378 original size:27 final size:27
Alignment explanation
Indices: 161446348--161446541 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
161446338 GGGGCAAAAT
* * * *
161446348 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161446375 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161446402 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
161446429 GATAATTCTACCCTAC-GGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161446455 GGTAATTCTACCCTATAAGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
161446481 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161446508 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161446535 AGTAATT
1 GGTAATT
161446542 TCACAATCAA
Statistics
Matches: 147, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 47 0.32
27 100 0.68
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:161446468 original size:53 final size:52
Alignment explanation
Indices: 161446348--161446541 Score: 262
Period size: 53 Copynumber: 3.6 Consensus size: 52
161446338 GGGGCAAAAT
* * * *
161446348 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTAC-GGGGTATTTC
*
161446402 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCG-TAATTCTACCCTACGGGGTATTTC
* * *
161446455 GGTAATTCTACCCTATAAGGGTATTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCTA-CGGGGTATTTC
*
161446508 GGTAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTC-GTAATT
161446542 TCACAATCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
52 13 0.10
53 70 0.56
54 42 0.34
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (52 bp):
GGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCTACGGGGTATTTC
Found at i:161446575 original size:26 final size:27
Alignment explanation
Indices: 161446546--161447000 Score: 560
Period size: 27 Copynumber: 17.2 Consensus size: 27
161446536 GTAATTTCAC
* *
161446546 AATCAAGGGT-AAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
161446572 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
161446599 AAT-GAGGGTAAACCAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
161446625 AATCAAGGGTAAAAC-GTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161446651 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161446678 AATCGA-GGTAAAAC-GTAATTCTG-A
1 AATCGAGGGTAAAACGGTAATTCTGTA
161446702 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
161446729 AATCGAGGGTAAAAC-GTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
161446755 AA-CTGAGGGT-AAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
161446781 AATCGAGGGTAAAAC-GTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
161446807 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
161446834 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
161446861 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
161446888 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
161446915 AATCGAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161446942 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
161446969 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
161446996 AATCG
1 AATCG
161447001 GGAGTACTTT
Statistics
Matches: 376, Mismatches: 36, Indels: 33
0.84 0.08 0.07
Matches are distributed among these distances:
23 1 0.00
24 5 0.01
25 22 0.06
26 133 0.35
27 212 0.56
28 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:161446582 original size:79 final size:80
Alignment explanation
Indices: 161446419--161446568 Score: 180
Period size: 79 Copynumber: 1.9 Consensus size: 80
161446409 CTACCCTACA
* * * **
161446419 AGGGTATTTCGATAATTCTACCCTACGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTAGT
1 AGGGTATTTCGATAATTCTACCCTACGGGGTATTTCAGTAATTCTACACAATAAGGGTAAATAGT
**
161446484 AATTCTACCCTATAG
66 AATTCTACCAAATAG
* *
161446499 -GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT-T-CACAATCAAGGGTAAATG
1 AGGGTATTTCGATAATTCTACCCTAC-GGGGTATTTCAGTAATTCTACACAAT-AAGGGTAAATA
161446561 GTAATTCT
64 GTAATTCT
161446569 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
78 4 0.07
79 41 0.67
80 16 0.26
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (80 bp):
AGGGTATTTCGATAATTCTACCCTACGGGGTATTTCAGTAATTCTACACAATAAGGGTAAATAGT
AATTCTACCAAATAG
Found at i:161449028 original size:30 final size:30
Alignment explanation
Indices: 161449013--161449144 Score: 196
Period size: 30 Copynumber: 4.4 Consensus size: 30
161449003 AACCAAAATG
*
161449013 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
161449043 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
161449073 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
161449103 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
161449134 AGAATTAGAAT
1 AGAATCAGAAT
161449145 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
29 1 0.01
30 74 0.77
31 21 0.22
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:161449138 original size:6 final size:6
Alignment explanation
Indices: 161449013--161449119 Score: 116
Period size: 6 Copynumber: 17.8 Consensus size: 6
161449003 AACCAAAATG
*
161449013 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
161449061 AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
161449109 AGAATC AGAAT
1 AGAATC AGAAT
161449120 TAGGTGACAG
Statistics
Matches: 87, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
5 8 0.09
6 73 0.84
7 4 0.05
8 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:161449299 original size:27 final size:26
Alignment explanation
Indices: 161449262--161449317 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
161449252 AGCATGGCTG
*
161449262 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
161449288 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
161449315 CCA
1 CCA
161449318 AAATCAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:161449533 original size:22 final size:22
Alignment explanation
Indices: 161449501--161449558 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
161449491 TAAATACGTT
*
161449501 TGGCACGAAGCCATAGTTAAGA
1 TGGCACAAAGCCATAGTTAAGA
* * *
161449523 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTTAAGA
*
161449545 TGGCACAGAGCCAT
1 TGGCACAAAGCCAT
161449559 TAATAATAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTTAAGA
Found at i:161449690 original size:27 final size:26
Alignment explanation
Indices: 161449646--161449728 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
161449636 TCGATCGGTC
* * * *
161449646 AACAGATATTGTGACAGAGTCATCAG
1 AACAGATATTATGGCAGAGCCACCAG
161449672 ATACAGATATTATGGCAGAGCCACCAG
1 A-ACAGATATTATGGCAGAGCCACCAG
*
161449699 AACAGATATTTATGGCATAGCCACCAG
1 AACAGATA-TTATGGCAGAGCCACCAG
161449726 AAC
1 AAC
161449729 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
AACAGATATTATGGCAGAGCCACCAG
Found at i:161456249 original size:43 final size:43
Alignment explanation
Indices: 161456181--161456355 Score: 165
Period size: 43 Copynumber: 4.1 Consensus size: 43
161456171 AAAGCTCGTA
* * * *
161456181 CAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
* * * * * * * * *
161456223 CGATGCCACTGTCCTAGAAAGGGTCTTACTTGAAAACATATAA
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
* * *
161456266 CTATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-AT
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
* *
161456308 ACAATGACAATGTCCTAGACATGGTCTTACATGTAATCACATCT
1 -CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
161456352 CAAT
1 CAAT
161456356 AACCTAATGT
Statistics
Matches: 102, Mismatches: 28, Indels: 5
0.76 0.21 0.04
Matches are distributed among these distances:
42 7 0.07
43 94 0.92
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
Found at i:161461440 original size:40 final size:40
Alignment explanation
Indices: 161461248--161461433 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
161461238 TCGAATGATG
* * * *
161461248 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
161461288 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
161461328 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
161461368 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
161461409 -CCGGGCTATGTCTCGAAGACATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
161461434 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:161461440 original size:80 final size:79
Alignment explanation
Indices: 161461304--161461456 Score: 202
Period size: 80 Copynumber: 1.9 Consensus size: 79
161461294 CTAAGATCCA
* * **
161461304 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGACATTTGAACGAG-TAGCTAAA
161461368 TCCGGGTTAAGTCCCG
65 TCC-GGTTAAGTCCCG
* * *
161461384 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCTCGAAGACATTTGAACGAGTAGCTATA
1 AAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGACATTTGAACGAGTAGCTAAA
161461448 TCCGGTTAA
65 TCCGGTTAA
161461457 ACTCCGAAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 8 0.12
80 54 0.84
81 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGACATTTGAACGAGTAGCTAAAT
CCGGTTAAGTCCCG
Found at i:161467144 original size:40 final size:39
Alignment explanation
Indices: 161467033--161467146 Score: 165
Period size: 39 Copynumber: 2.9 Consensus size: 39
161467023 GAATGTTCGA
161467033 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* * *
161467072 ATGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* * *
161467111 GTGATATCCGGGTTATGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
161467147 GGTTACCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 49 0.74
40 17 0.26
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
Found at i:161467162 original size:40 final size:40
Alignment explanation
Indices: 161467040--161467176 Score: 134
Period size: 39 Copynumber: 3.5 Consensus size: 40
161467030 CGAGTGATAT
* * ** *
161467040 CCGGGCTA-AGCCCGAAGGCAATTGTGCGAGCTATGATAC
1 CCGGGCTATATCCCGAAGGCAATTGTGCGAGTTACCATAA
* *** *
161467079 CCGGGCTA-AGCCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTATATCCCGAAGGCAATTGTGCGAGTTACCATAA
* * * *
161467118 CCGGGTTATGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTATATCCCGAAGGCAATTGTGCGAGTTACCATAA
161467158 CCGGGCTATATCCCGAAGG
1 CCGGGCTATATCCCGAAGG
161467177 TGTTTGAACA
Statistics
Matches: 83, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 43 0.52
40 40 0.48
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.22
Consensus pattern (40 bp):
CCGGGCTATATCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:161474254 original size:25 final size:26
Alignment explanation
Indices: 161474160--161474268 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
161474150 TGATACAAAT
161474160 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
161474186 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
161474212 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
161474238 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
161474263 TGATAA
1 TGATAA
161474269 GAAATTCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 24 0.30
26 55 0.70
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:161475763 original size:25 final size:25
Alignment explanation
Indices: 161475715--161475763 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
161475705 ACAGTTTCAC
161475715 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
161475740 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
161475764 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:161476290 original size:136 final size:135
Alignment explanation
Indices: 161476012--161476294 Score: 487
Period size: 135 Copynumber: 2.1 Consensus size: 135
161476002 AGTAGTCTCC
*
161476012 CCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
*
161476077 TTATCTGAATAAGGGGCTAAGGCTCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCAC
161476142 TGTTA
131 TGTTA
161476147 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
161476212 GTTATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACCA
65 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
*
161476276 CTGTTG
130 CTGTTA
*
161476282 CCTGAATGGGCTT
1 CC-AAATGGGCTT
161476295 AGGCCCAATG
Statistics
Matches: 140, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
135 74 0.53
136 66 0.47
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (135 bp):
CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCAC
TGTTA
Found at i:161477561 original size:12 final size:12
Alignment explanation
Indices: 161477544--161477581 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
161477534 ACTCGGGGAA
161477544 GAGGCCGTGGTC
1 GAGGCCGTGGTC
161477556 GAGGCCGTGGTC
1 GAGGCCGTGGTC
161477568 GAGGCCGTGGTC
1 GAGGCCGTGGTC
161477580 GA
1 GA
161477582 CCGAGGTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.11, C:0.24, G:0.50, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:161482478 original size:26 final size:26
Alignment explanation
Indices: 161482449--161482558 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
161482439 TGATACAAAT
161482449 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
161482475 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
161482501 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
* * *
161482527 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
161482553 TGATAA
1 TGATAA
161482559 GAAATTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:161484567 original size:137 final size:136
Alignment explanation
Indices: 161484321--161484606 Score: 493
Period size: 137 Copynumber: 2.1 Consensus size: 136
161484311 GAGTAGTCTC
*
161484321 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
161484386 GTTATCTGAATAAGGGGCTAAGGCTCAGTTTATTGTAATCTGAAAAGGGCTCT-AGCCCAGTACC
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGA-CCCAGTACC
161484450 ACTGTTA
130 ACTGTTA
161484457 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
161484522 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGACCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGACCCAGTACC
*
161484587 ACTGTTG
130 ACTGTTA
**
161484594 CCTGAATGGGCTT
1 CCCAAATGGGCTT
161484607 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
136 20 0.14
137 121 0.85
138 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGACCCAGTACCA
CTGTTA
Found at i:161494412 original size:14 final size:14
Alignment explanation
Indices: 161494393--161494419 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
161494383 TATCAAAACA
161494393 ATAATTAAGAATAC
1 ATAATTAAGAATAC
161494407 ATAATTAAGAATA
1 ATAATTAAGAATA
161494420 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
ATAATTAAGAATAC
Found at i:161500901 original size:53 final size:51
Alignment explanation
Indices: 161500749--161500902 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 51
161500739 TGATGGAAAA
* *
161500749 GATGTGATATGTGCTTCTGTATAAGACCATAGCTGGGCTATGGCATTGGTAT
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * *
161500801 AATGTGAT-TCTCGTTCCCGTATAAGACCATAGCTGGGCTATGACATCGGTGT
1 GATGTGATATGT-GTT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * *
161500853 GATGTGATAATGTGATTCCATATAAGACCATATCTGGGATATGGCATCGG
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
161500903 CATGTTATGT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
51 4 0.05
52 47 0.55
53 30 0.35
54 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:161500959 original size:46 final size:47
Alignment explanation
Indices: 161500820--161500959 Score: 106
Period size: 46 Copynumber: 2.9 Consensus size: 47
161500810 CTCGTTCCCG
* * *
161500820 TATAAGACCATAGCTGGGCTATGACATCGGTGTGATGTGATAATGTGATTCCA
1 TATAAGACCATAGCAGGGATATGGCATC----TGATGTG-T-ATGTGATTCCA
* * *
161500873 TATAAGACCATATCTGGGATATGGCATCGGCATGT-TATGTGA-TCCA
1 TATAAGACCATAGCAGGGATATGGCATCTG-ATGTGTATGTGATTCCA
* * *
161500919 TGTAAGACCATGGCAGGGATATGGC-TTTGATGTGTGATGTG
1 TATAAGACCATAGCAGGGATATGGCATCTGATGTGT-ATGTG
161500960 TGACAATGTG
Statistics
Matches: 74, Mismatches: 10, Indels: 13
0.76 0.10 0.13
Matches are distributed among these distances:
44 4 0.05
45 3 0.04
46 30 0.41
47 6 0.08
48 1 0.01
49 1 0.01
50 4 0.05
53 25 0.34
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (47 bp):
TATAAGACCATAGCAGGGATATGGCATCTGATGTGTATGTGATTCCA
Found at i:161503913 original size:25 final size:25
Alignment explanation
Indices: 161503884--161503931 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
161503874 TTATAACATG
* * *
161503884 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
161503909 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
161503932 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:161503998 original size:11 final size:11
Alignment explanation
Indices: 161503962--161504017 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
161503952 CATGGTATGT
161503962 ATGATATGCAC
1 ATGATATGCAC
* *
161503973 ATGACATG--T
1 ATGATATGCAC
161503982 ATGATATGCAC
1 ATGATATGCAC
*
161503993 ATGATATG--T
1 ATGATATGCAC
161504002 ATGATATGCAC
1 ATGATATGCAC
161504013 ATGAT
1 ATGAT
161504018 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:161504017 original size:20 final size:20
Alignment explanation
Indices: 161503951--161504017 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
161503941 TGATTTTAAT
*
161503951 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
161503971 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
161503991 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
161504011 ACATGAT
1 ACATGAT
161504018 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:161504208 original size:23 final size:24
Alignment explanation
Indices: 161504065--161504214 Score: 245
Period size: 24 Copynumber: 6.4 Consensus size: 24
161504055 GAGGAAGTGA
161504065 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
161504089 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
161504112 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
161504136 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
161504160 --AAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
161504182 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
161504205 AAAAGAGGCT
1 AAAAG-GGCT
161504215 AGGCCTCCAG
Statistics
Matches: 120, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
22 22 0.18
23 40 0.33
24 58 0.48
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:161504480 original size:30 final size:31
Alignment explanation
Indices: 161504420--161504482 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
161504410 CGTTTACAGT
161504420 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
161504451 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
161504481 AA
1 AA
161504483 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:161509826 original size:31 final size:31
Alignment explanation
Indices: 161509791--161509854 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
161509781 CGTTTACAGT
161509791 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
161509822 AAAGGCTTCGGCCCAGTTTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
161509853 AA
1 AA
161509855 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:161515424 original size:40 final size:39
Alignment explanation
Indices: 161515259--161515442 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
161515249 AAATTGAATG
* * *
161515259 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
161515299 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * * *
161515339 ACATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
161515379 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
161515418 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
161515443 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 102 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:161522171 original size:40 final size:39
Alignment explanation
Indices: 161522127--161522252 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
161522117 GGGACTCAAC
*
161522127 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
161522167 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
161522207 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
161522247 CCGGAT
1 CCGGAT
161522253 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:161522211 original size:80 final size:80
Alignment explanation
Indices: 161522066--161522252 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
161522056 GCTACACATT
* * *
161522066 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
161522130 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
161522146 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
161522209 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
161522227 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
161522253 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:161538826 original size:20 final size:20
Alignment explanation
Indices: 161538797--161538841 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
161538787 AGCACATGTA
* *
161538797 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
161538817 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
161538837 TTCAT
1 TTCAT
161538842 TTTAGTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:161542993 original size:25 final size:25
Alignment explanation
Indices: 161542965--161543034 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
161542955 CTCTTTTAAT
*
161542965 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
161542990 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
161543015 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
161543035 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:161543138 original size:10 final size:11
Alignment explanation
Indices: 161543068--161543142 Score: 66
Period size: 10 Copynumber: 7.1 Consensus size: 11
161543058 ACCCAACCCA
*
161543068 TGCATATAATG
1 TGCATATCATG
* *
161543079 AGTATATCAT-
1 TGCATATCATG
*
161543089 AGCATATCATG
1 TGCATATCATG
161543100 TGCATATCAT-
1 TGCATATCATG
**
161543110 AACATATCATG
1 TGCATATCATG
161543121 TGCATATCATG
1 TGCATATCATG
*
161543132 T-CCTATCATG
1 TGCATATCATG
161543142 T
1 T
161543143 ATAACAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
10 26 0.50
11 26 0.50
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (11 bp):
TGCATATCATG
Found at i:161543142 original size:21 final size:21
Alignment explanation
Indices: 161543082--161543130 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
161543072 TATAATGAGT
*
161543082 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
161543103 ATATCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
161543124 ATATCAT
1 ATATCAT
161543131 GTCCTATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:161543284 original size:27 final size:27
Alignment explanation
Indices: 161543254--161543531 Score: 304
Period size: 27 Copynumber: 10.3 Consensus size: 27
161543244 GGTGCAAAAT
* * *
161543254 GGTAATTTTACCCTACGAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
161543281 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
161543308 GATATTTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
161543335 GGTAATTCTACCCTACAAGGGGTATTTC
1 GGTAATTCTACCCTACAA-GGGTATTTC
* *
161543363 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
161543390 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
161543417 GGTATTTCTATCCTACAAAGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
161543444 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
161543471 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * *
161543498 AGTAAATCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
161543525 GGTAATT
1 GGTAATT
161543532 TTGTAAACCA
Statistics
Matches: 214, Mismatches: 36, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 188 0.88
28 26 0.12
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:161543626 original size:53 final size:54
Alignment explanation
Indices: 161543569--161543681 Score: 183
Period size: 54 Copynumber: 2.1 Consensus size: 54
161543559 TTACAAGTTA
* **
161543569 AGGGTAAAACGGTAATTCTATAAATCGA-GGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
*
161543622 AGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
161543676 AGGGTA
1 AGGGTA
161543682 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
53 26 0.47
54 29 0.53
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (54 bp):
AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
Found at i:161543626 original size:80 final size:80
Alignment explanation
Indices: 161543524--161543678 Score: 184
Period size: 80 Copynumber: 1.9 Consensus size: 80
161543514 AGGGGTATTT
* *** * * * * *
161543524 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAGTTAAGGGTAAAACGGTAATTCTA
1 TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTACAAATCAAGGGTAAAACAGTAATTCTA
161543589 TAAATCGAGGTAAAA
66 TAAATCGAGGTAAAA
* * * * *
161543604 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
1 TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTACAAATCAAGGGTAAAACAGTAATTCTA
161543669 TAAATCGAGG
66 TAAATCGAGG
161543679 GTACTTTGGT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (80 bp):
TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTACAAATCAAGGGTAAAACAGTAATTCTA
TAAATCGAGGTAAAA
Found at i:161543692 original size:27 final size:27
Alignment explanation
Indices: 161543569--161543681 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
161543559 TTACAAGTTA
*
161543569 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
*
161543596 A-GGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
*
161543622 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
** *
161543649 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
161543676 AGGGTA
1 AGGGTA
161543682 CTTTGGTAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 24 0.30
27 55 0.70
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTCTATAAATCG
Found at i:161546619 original size:29 final size:27
Alignment explanation
Indices: 161546526--161546632 Score: 106
Period size: 29 Copynumber: 3.8 Consensus size: 27
161546516 ACATACATGC
* * * *
161546526 ATATGGCCTACTAAGCCCAATATCATTC
1 ATATGGCCCATTAGGCCCAA-ATCATTT
161546554 ATATGGCCCATTAGGCCCAAATCATATT
1 ATATGGCCCATTAGGCCCAAATCAT-TT
*
161546582 CGTATGGCCCATTAGGCCCAAATGCCATTT
1 -ATATGGCCCATTAGGCCCAAAT--CATTT
* *
161546612 ATAGGGCCCATTCGGCCCAAA
1 ATATGGCCCATTAGGCCCAAA
161546633 CACATTTGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
27 5 0.07
28 18 0.27
29 39 0.58
30 2 0.03
31 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (27 bp):
ATATGGCCCATTAGGCCCAAATCATTT
Found at i:161551829 original size:39 final size:39
Alignment explanation
Indices: 161551771--161552198 Score: 676
Period size: 39 Copynumber: 11.0 Consensus size: 39
161551761 AAGACACTGA
161551771 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* * *
161551810 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTACTAG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
161551849 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
161551888 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGTTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
*
161551927 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* * *
161551966 AAATGTATCCAGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
161552005 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
161552044 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
161552083 AAATGTATCCGGGCCAAAGTCCCACAGGCTTTGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
*
161552122 AAATGTATCCGGGCCAAAGTCCCCCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
** * *
161552161 AAATGTATCCGGGTTAAAGTCCTGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTG
161552199 ATAATATAAT
Statistics
Matches: 364, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 364 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:161554079 original size:40 final size:40
Alignment explanation
Indices: 161554033--161554172 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
161554023 CGGATATAAC
*
161554033 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGGTT-TAGT
* *
161554073 GACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* * * * * *
161554113 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* *
161554152 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
161554173 ATCCTAGTCC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.38
40 48 0.55
41 6 0.07
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
Found at i:161554142 original size:79 final size:81
Alignment explanation
Indices: 161554041--161554225 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
161554031 ACGACTCGCT
** * *
161554041 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* * *
161554104 GGGTTTAGTAACTT-GCA
64 AGATATAGTAACTTAGCA
* **
161554121 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCAG
*
161554185 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
161554201 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
161554226 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCAG
ATATAGTAACTTAGCA
Found at i:161562165 original size:39 final size:40
Alignment explanation
Indices: 161562074--161562263 Score: 176
Period size: 40 Copynumber: 4.8 Consensus size: 40
161562064 GGATATAACG
* * ** *
161562074 ACTCGCTCAAATGCCTTC-GGACGAAGCCCGG-TTATAGTG
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
161562113 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
161562153 ACTTGCAC-AATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
161562191 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
161562231 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGGA
161562264 CATCATTCGA
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 37 0.30
40 53 0.43
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:161562180 original size:78 final size:79
Alignment explanation
Indices: 161562083--161562263 Score: 206
Period size: 78 Copynumber: 2.3 Consensus size: 79
161562073 GACTCGCTCA
* ** * * *
161562083 AATGCCTTCGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCCGGG
1 AATGCCTTCGGGCTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCCGGA
*
161562146 TTTAGTAACTT-GCAC
64 TATAGTAACTTAGCAC
* **
161562161 AATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGATA
*
161562226 TAGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
161562240 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
161562264 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
77 3 0.03
78 56 0.64
79 17 0.20
80 11 0.13
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGATA
TAGTAACTTAGCAC
Found at i:161572692 original size:39 final size:39
Alignment explanation
Indices: 161572638--161572827 Score: 312
Period size: 39 Copynumber: 4.9 Consensus size: 39
161572628 GAGGATTATA
161572638 TCCGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
161572677 TCCGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG-TATT
1 TCCGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
*
161572715 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
1 TCC-GGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
161572755 TCGGGTTAAG-CCCGAAGGCATTCGTGCTGGTCGCTATT
1 TCCGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
*
161572793 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TCC-GGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
161572828 TTACATCGGG
Statistics
Matches: 141, Mismatches: 6, Indels: 7
0.92 0.04 0.05
Matches are distributed among these distances:
38 35 0.25
39 79 0.56
40 27 0.19
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.33
Consensus pattern (39 bp):
TCCGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:161572793 original size:78 final size:77
Alignment explanation
Indices: 161572641--161572853 Score: 327
Period size: 78 Copynumber: 2.7 Consensus size: 77
161572631 GATTATATCC
* *
161572641 GGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTCCGGTTAAGTCCCGAAGGCATTCGTGCT
1 GGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCGGGTTAAG-CCCGAAGGCATTCGTGCT
*
161572706 GGTTGTATTTCCG
65 GGTCGTATTTCCG
161572719 GGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCGGGTTAAGCCCGAAGGCATTCGTGCTG
1 GGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCGGGTTAAGCCCGAAGGCATTCGTGCTG
161572784 GTCGCTATTTCCG
66 GTCG-TATTTCCG
* ** * *
161572797 GGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACATCGGGCTAAATCCCGAAGGCA
1 GGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCGGG-TTAAGCCCGAAGGCA
161572854 ATTGGGTTGG
Statistics
Matches: 125, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
77 22 0.18
78 90 0.72
79 13 0.10
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (77 bp):
GGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCGGGTTAAGCCCGAAGGCATTCGTGCTG
GTCGTATTTCCG
Found at i:161572847 original size:117 final size:117
Alignment explanation
Indices: 161572641--161572853 Score: 340
Period size: 117 Copynumber: 1.8 Consensus size: 117
161572631 GATTATATCC
*
161572641 GGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTCCGGTTAAGTCCCGAAGGCATTCGTGCT
1 GGTTAAGTCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGTTAAGTCCCGAAGGCATTCGTGCT
** * *
161572706 GGTTGTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCG
66 GGTTGTACATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTTGTTATTTCG
*
161572758 GGTTAAG-CCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GGTTAAGTCCCGAAGGCATTCGTGCTGGTCGCTATTTCC-GGTTAAGTCCCGAAGGCATTCGTGC
161572822 TGGTTGTTACAT-CGGGCTAAATCCCGAAGGCA
65 TGGTTG-TACATCCGGGCTAAATCCCGAAGGCA
161572854 ATTGGGTTGG
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
116 30 0.34
117 55 0.62
118 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (117 bp):
GGTTAAGTCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGTTAAGTCCCGAAGGCATTCGTGCT
GGTTGTACATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTTGTTATTTCG
Found at i:161583011 original size:22 final size:22
Alignment explanation
Indices: 161582968--161583012 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
161582958 TAAAAGGGAG
* *
161582968 ATTTTTATTTTTTTATTATTTT
1 ATTTTTATTCTTTTACTATTTT
* *
161582990 ATTTTTCTTCTTTTACTGTTTT
1 ATTTTTATTCTTTTACTATTTT
161583012 A
1 A
161583013 AAGGAAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (22 bp):
ATTTTTATTCTTTTACTATTTT
Found at i:161586896 original size:11 final size:11
Alignment explanation
Indices: 161586880--161586910 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
161586870 ACCGGTTTTA
161586880 TTTATTTATTT
1 TTTATTTATTT
*
161586891 TTTATTTAATT
1 TTTATTTATTT
161586902 TTTATTTAT
1 TTTATTTAT
161586911 GAATTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:161587794 original size:2 final size:2
Alignment explanation
Indices: 161587787--161587819 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
161587777 AGCATATGTT
161587787 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
161587820 GAAATGGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:161591107 original size:32 final size:32
Alignment explanation
Indices: 161591070--161591133 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
161591060 TTAGACTTGA
161591070 TTTGCCTTTGTTTGTGATTTTTATTTTAGACC
1 TTTGCCTTTGTTTGTGATTTTTATTTTAGACC
161591102 TTTGCCTTTGTTTGTGATTTTTATTTTAGACC
1 TTTGCCTTTGTTTGTGATTTTTATTTTAGACC
161591134 ATGGAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (32 bp):
TTTGCCTTTGTTTGTGATTTTTATTTTAGACC
Found at i:161592026 original size:29 final size:29
Alignment explanation
Indices: 161591984--161592046 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
161591974 AGTGTTATTT
161591984 ATGATGTCAATTATCACGTCCCATCTGAA
1 ATGATGTCAATTATCACGTCCCATCTGAA
161592013 ATGATGTCAATTATCACGTCCCATCTGAA
1 ATGATGTCAATTATCACGTCCCATCTGAA
161592042 ATGAT
1 ATGAT
161592047 TAATAGTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (29 bp):
ATGATGTCAATTATCACGTCCCATCTGAA
Found at i:161592206 original size:2 final size:2
Alignment explanation
Indices: 161592199--161592259 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
161592189 TGAAGGGGAG
161592199 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
161592241 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
161592260 AAGCCACTCC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:161592812 original size:3 final size:3
Alignment explanation
Indices: 161592797--161592829 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
161592787 GACATAAAAA
*
161592797 GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
161592830 CTAGAAAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:161594255 original size:56 final size:56
Alignment explanation
Indices: 161594195--161594306 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
161594185 CATAGTGACT
*
161594195 GAGTAGACTTAAATGTACATATACTGGATGTTTAATTAGTTATGATTGAAGTATTA
1 GAGTAGACTTAAATGTACATATACTGGATGTTTAATTAGTTATGACTGAAGTATTA
161594251 GAGTAGACTTAAATGTACATATACTGGATGTTTAATTAGTTATGACTGAAGTATTA
1 GAGTAGACTTAAATGTACATATACTGGATGTTTAATTAGTTATGACTGAAGTATTA
161594307 ATGGATGGCG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (56 bp):
GAGTAGACTTAAATGTACATATACTGGATGTTTAATTAGTTATGACTGAAGTATTA
Found at i:161594728 original size:67 final size:67
Alignment explanation
Indices: 161594599--161594767 Score: 185
Period size: 67 Copynumber: 2.5 Consensus size: 67
161594589 CACCTTGAAA
* * * * *
161594599 GAAGTATAATGTGTAAGACCACAGCTCAGCTTTGGCAACATATGAAGTCCACCAAAATATTAAAT
1 GAAGTATAATATGTAAGACCATAGCTCAGCTATGGCAACATATGAAGTCCACCAAAACATTAAAC
161594664 AT
66 AT
** * * * * **
161594666 GGGGTATAATATGTAAAACCATAGCTTAGCTATGGCAACATGTGAAGTCCGCCAGGACATTAAAC
1 GAAGTATAATATGTAAGACCATAGCTCAGCTATGGCAACATATGAAGTCCACCAAAACATTAAAC
161594731 AT
66 AT
* * **
161594733 GAAGTATACTATGTAGGACCATAGCTGGGCTATGG
1 GAAGTATAATATGTAAGACCATAGCTCAGCTATGG
161594768 TGCCAGATAG
Statistics
Matches: 82, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
67 82 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (67 bp):
GAAGTATAATATGTAAGACCATAGCTCAGCTATGGCAACATATGAAGTCCACCAAAACATTAAAC
AT
Found at i:161595861 original size:11 final size:13
Alignment explanation
Indices: 161595836--161595867 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
161595826 TAGTTTATTA
161595836 ATATTTTAAATTG
1 ATATTTTAAATTG
161595849 AT-TTTTAAA-TG
1 ATATTTTAAATTG
161595860 ATATTTTA
1 ATATTTTA
161595868 TTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAAATTG
Found at i:161597589 original size:40 final size:40
Alignment explanation
Indices: 161597534--161597629 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
161597524 CTCGAGAATA
* * *
161597534 TAAAGTGGATAGGATTCGCTCCTGATTCACTATGGTAATT
1 TAAAGTGAATAGGATTCACTCCTGATTCACTATGGTAACT
* *
161597574 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGAATAGGATTCACTCCTGATTCACTATGGTAACT
* *
161597614 TAAGGCGAATAGGATT
1 TAAAGTGAATAGGATT
161597630 TGACCTGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (40 bp):
TAAAGTGAATAGGATTCACTCCTGATTCACTATGGTAACT
Found at i:161597764 original size:79 final size:78
Alignment explanation
Indices: 161597596--161597833 Score: 352
Period size: 78 Copynumber: 3.0 Consensus size: 78
161597586 GATTTATTCC
* * *
161597596 TGATTCACTATGGTAACTTAAGGCGAATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
*
161597661 GTTACATAATATA
66 GTTACATGATATA
* *
161597674 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCTTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
* *
161597739 GGTTACACGATATA
65 AGTTACATGATATA
* *
161597753 TGATTTC-TTATGATAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTAC
1 TGA-TTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTAC
*
161597817 AGTTACATGAGATA
65 AGTTACATGATATA
161597831 TGA
1 TGA
161597834 CTCAAGAGAG
Statistics
Matches: 143, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
78 72 0.50
79 68 0.48
80 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
GTTACATGATATA
Found at i:161599697 original size:47 final size:46
Alignment explanation
Indices: 161599628--161599804 Score: 209
Period size: 47 Copynumber: 3.8 Consensus size: 46
161599618 TGGTTGAGCA
161599628 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
161599675 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
161599720 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
161599768 GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161599805 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.05
45 1 0.01
46 36 0.32
47 57 0.51
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:161601499 original size:46 final size:46
Alignment explanation
Indices: 161601447--161601622 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
161601437 TGGTTGAGCA
*
161601447 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
161601493 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
161601538 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
161601586 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161601623 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:161601603 original size:93 final size:93
Alignment explanation
Indices: 161601444--161601614 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
161601434 GGATGGTTGA
* **
161601444 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
161601509 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
161601537 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
161601602 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
161601615 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:161604300 original size:46 final size:46
Alignment explanation
Indices: 161604141--161604354 Score: 220
Period size: 46 Copynumber: 4.7 Consensus size: 46
161604131 AGATTTGTGT
* * * * *
161604141 GCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
* * * * *
161604189 GCTAGTGTAAGTCATGTCTGGGACATGCATCAGCCAC-AGTTGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
* **
161604234 GCCACTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
* * *
161604280 GCCAGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
*
161604324 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
161604355 AGCACGGTTA
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
44 28 0.20
45 39 0.28
46 48 0.35
47 13 0.09
48 10 0.07
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:161604303 original size:91 final size:90
Alignment explanation
Indices: 161604141--161604354 Score: 232
Period size: 91 Copynumber: 2.3 Consensus size: 90
161604131 AGATTTGTGT
* * * * *
161604141 GCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGTCATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGT
*
161604206 CTGGGACATGCATCAGCCAC-AGTTGAGA
64 CTGGGACATGCATCAGCCACGAGAT--GA
* * * ** *
161604234 GCCACTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
* * * *
161604299 GGGACATGCGTCGGCTACGAGATGT
66 GGGACATGCATCAGCCACGAGATGA
*
161604324 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
161604355 AGCACGGTTA
Statistics
Matches: 102, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
90 30 0.29
91 45 0.44
92 16 0.16
93 11 0.11
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACGAGATGA
Found at i:161604388 original size:46 final size:45
Alignment explanation
Indices: 161604138--161604394 Score: 197
Period size: 46 Copynumber: 5.6 Consensus size: 45
161604128 ATGAGATTTG
* *
161604138 TGTGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCA--TTGAGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGTT-AGA
* * * *
161604184 CGAGGGCTAGTGTAAGTCATGTCTGGGACATGCATCAGCCACAGTT-GA
1 --TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CAC-GTTAGA
* * * *
161604232 -GAGCCACTGTAAGACATGTCTGGGACATGCATCGGC-C-TCGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGT-TAGA
* * *
161604275 TGTTAGCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACG--AGA
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-ACGTTAGA
* *
161604321 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGGTTACA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCAC-GTTAGA
* *
161604367 TGTGTCAGTGTAAGACCTGTCTGGGACA
1 TGTGCCAGTGTAAGACATGTCTGGGACA
161604395 CGGCATAACA
Statistics
Matches: 170, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
43 5 0.03
44 33 0.19
45 31 0.18
46 69 0.41
47 15 0.09
48 14 0.08
50 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (45 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGTTAGA
Found at i:161607813 original size:46 final size:46
Alignment explanation
Indices: 161607761--161607936 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
161607751 TGGTTGAGCA
*
161607761 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
161607807 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
161607852 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
161607900 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
161607937 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:161607917 original size:93 final size:93
Alignment explanation
Indices: 161607758--161607928 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
161607748 GGATGGTTGA
* **
161607758 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
161607823 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
161607851 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
161607916 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
161607929 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:161613848 original size:47 final size:47
Alignment explanation
Indices: 161613772--161613937 Score: 280
Period size: 47 Copynumber: 3.5 Consensus size: 47
161613762 GCTTTATCAT
* *
161613772 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTA
*
161613820 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
161613867 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
161613914 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
161613938 CACTTCCTCC
Statistics
Matches: 113, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
47 101 0.89
48 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
Found at i:161613854 original size:24 final size:24
Alignment explanation
Indices: 161613772--161613936 Score: 248
Period size: 23 Copynumber: 7.0 Consensus size: 24
161613762 GCTTTATCAT
*
161613772 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
161613797 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
161613820 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
161613844 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
161613867 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
161613891 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
161613914 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
161613937 GCACTTCCTC
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
23 66 0.51
24 51 0.40
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:161614007 original size:9 final size:9
Alignment explanation
Indices: 161613993--161614049 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
161613983 ATCTCATGTG
161613993 CATATCATA
1 CATATCATA
*
161614002 CATATCATGTG
1 CATATCA--TA
161614013 CATATCATA
1 CATATCATA
* *
161614022 CATGTCATGTG
1 CATATCA--TA
161614033 CATATCATA
1 CATATCATA
161614042 CATATCAT
1 CATATCAT
161614050 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:161614009 original size:20 final size:20
Alignment explanation
Indices: 161613981--161614051 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
161613971 GCATTTATGA
*
161613981 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
161614001 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
161614021 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
161614041 ACATATCATGT
1 ACATATCATGT
161614052 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:161614016 original size:11 final size:11
Alignment explanation
Indices: 161613986--161614040 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
161613976 TATGAACATC
161613986 TCATGTGCATA
1 TCATGTGCATA
*
161613997 TCA--TACATA
1 TCATGTGCATA
161614006 TCATGTGCATA
1 TCATGTGCATA
* *
161614017 TCA--TACATG
1 TCATGTGCATA
161614026 TCATGTGCATA
1 TCATGTGCATA
161614037 TCAT
1 TCAT
161614041 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:161617216 original size:40 final size:40
Alignment explanation
Indices: 161617161--161617520 Score: 488
Period size: 40 Copynumber: 9.0 Consensus size: 40
161617151 GAGTTATATA
* *
161617161 TATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
161617201 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* ** * * *
161617241 TATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
161617281 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
161617321 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
161617361 TATCCGGGCTAAGTCCCGAAGACCATTTGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
161617401 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* * * * * *
161617441 TATCCGTGCTAA-ACCCGAAGAGCATTCGTTCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* * * *
161617480 TATCCGGGCTAGGTCCCGAAGAGTAATCATGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
161617520 T
1 T
161617521 GTATTCGGGC
Statistics
Matches: 281, Mismatches: 38, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
39 32 0.11
40 249 0.89
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:161621505 original size:47 final size:47
Alignment explanation
Indices: 161621447--161621569 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
161621437 TGATTGTGTG
* *
161621447 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCA
*
161621494 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCA
*
161621541 TATATGTGATAAGGCCGAATGGCTAATGT
1 TATATGTGATAAGGCCGAATGGCCAATGT
161621570 AAAATATGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCA
Found at i:161621610 original size:48 final size:47
Alignment explanation
Indices: 161621542--161621719 Score: 188
Period size: 48 Copynumber: 3.8 Consensus size: 47
161621532 GAACATGCAT
*
161621542 ATATGTGATAAGGCCGAATGGCTAATGTAAAATATGTATGAGATATG
1 ATATGTGATAAAGCCGAATGGCTAATGTAAAATATGTATGAGATATG
* *
161621589 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 -ATATGTGATAAAGCCGAATGGCT-AATGT-AAA-ATATGTATGAGATATG
* * * *
161621639 -TATATG-T---GCCGAATGGCTAGTGTGAACTATGTATGAGATATG
1 ATATGTGATAAAGCCGAATGGCTAATGTAAAATATGTATGAGATATG
* *
161621681 TATATGTGATAAAGCCGAATGGCTAGTGTGAAATATGTA
1 -ATATGTGATAAAGCCGAATGGCTAATGTAAAATATGTA
161621720 GGCGATGTGC
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 14 0.13
43 2 0.02
44 18 0.16
45 2 0.02
47 2 0.02
48 54 0.49
49 3 0.03
50 15 0.14
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (47 bp):
ATATGTGATAAAGCCGAATGGCTAATGTAAAATATGTATGAGATATG
Found at i:161621653 original size:44 final size:42
Alignment explanation
Indices: 161621602--161621688 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
161621592 ATGTGGTAAA
161621602 GCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGT
1 GCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGT
* * *
161621646 GCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATATGT
1 GCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGT
161621688 G
1 G
161621689 ATAAAGCCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 22 0.56
43 2 0.05
44 14 0.36
45 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.33
Consensus pattern (42 bp):
GCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGT
Found at i:161621657 original size:92 final size:92
Alignment explanation
Indices: 161621448--161621717 Score: 266
Period size: 92 Copynumber: 2.9 Consensus size: 92
161621438 GATTGTGTGT
* * ** * *
161621448 ATATGAGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-ACATGCATATGTGTGATAAGGC
1 ATATGTGATAAGGCCGAATGGCTAATGT-AAAATATGTATGAGATATGCATATGTG-G-TAAAGC
*
161621509 CGAATGGCCAATGTGATGAATATGAACATGCAT
63 CGAATGG-CAATGTGA--AATATGAACATGCAG
161621542 ATATGTGATAAGGCCGAATGGCTAATGTAAAATATGTATGAGATATGCATATGTGGTAAAGCCGA
1 ATATGTGATAAGGCCGAATGGCTAATGTAAAATATGTATGAGATATGCATATGTGGTAAAGCCGA
*
161621607 ATGGTCAATGTGAAATAT-ATATATG-AG
66 ATGG-CAATGTGAAATATGA-ACATGCAG
* * * * * *
161621634 ATATGT-ATATGTGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATATGTGATAAAGCCG
1 ATATGTGATAAG-GCCGAATGGCTAATGTAAAATATGTATGAGATATGCATATGTGGTAAAGCCG
*
161621698 AATGGCTAGTGTGAAATATG
65 AATGGC-AATGTGAAATATG
161621718 TAGGCGATGT
Statistics
Matches: 152, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
91 5 0.03
92 71 0.47
93 11 0.07
94 29 0.19
95 20 0.13
96 4 0.03
97 12 0.08
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (92 bp):
ATATGTGATAAGGCCGAATGGCTAATGTAAAATATGTATGAGATATGCATATGTGGTAAAGCCGA
ATGGCAATGTGAAATATGAACATGCAG
Found at i:161621910 original size:37 final size:37
Alignment explanation
Indices: 161621855--161621972 Score: 184
Period size: 37 Copynumber: 3.2 Consensus size: 37
161621845 ACATGAAACT
*
161621855 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATATATTCCGGGTAAGACCCGATGACTACGTG
161621892 TGGAGATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATATATTCCGGGTAAGACCCGATGACTACGTG
* * *
161621929 TGGAGAT-TTTGTCCGGGTAAGACCCGATAACTCCGTG
1 TGGAGATATAT-TCCGGGTAAGACCCGATGACTACGTG
161621966 TGGAGAT
1 TGGAGAT
161621973 TTCGTCTGAG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 2 0.03
37 74 0.97
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
TGGAGATATATTCCGGGTAAGACCCGATGACTACGTG
Found at i:161625646 original size:40 final size:40
Alignment explanation
Indices: 161625538--161625747 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
161625528 CGGGATTTAA
* * * * *
161625538 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
161625578 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
161625618 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
161625658 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
161625698 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
161625738 CCGGATATAT
1 CCGGATATAT
161625748 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:161633716 original size:40 final size:40
Alignment explanation
Indices: 161633608--161633817 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
161633598 CGGGATTTAA
* * * * *
161633608 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
161633648 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
161633688 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
161633728 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
161633768 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
161633808 CCGGATATAT
1 CCGGATATAT
161633818 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:161638836 original size:8 final size:8
Alignment explanation
Indices: 161638789--161638834 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
161638779 AAGAGGAAAA
*
161638789 ATCATGGG
1 ATCATGAG
161638797 ATCATGAG
1 ATCATGAG
*
161638805 ATTATGAG
1 ATCATGAG
161638813 ATCATGAG
1 ATCATGAG
*
161638821 ATCATGGG
1 ATCATGAG
161638829 ATCATG
1 ATCATG
161638835 GGCCTACTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (8 bp):
ATCATGAG
Found at i:161640837 original size:46 final size:46
Alignment explanation
Indices: 161640739--161641002 Score: 207
Period size: 50 Copynumber: 5.5 Consensus size: 46
161640729 TAATTTGTGT
*
161640739 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAATGAGACGAGA
* *
161640787 GCCAGTGTAAGACATGTCCGGGACATGCATCGGC-CTCGAGACGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAAT-GAGACG-AGA
* * * * *
161640833 GCCAGTGTAAGATATGTCTGGGACATGCATCAGCTACGAGAC-A-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATGAGACGAGA
** * *
161640877 GTTAGTGTAAGACCATGTCTGGGACATGGCCTCAGC-ATGTAAGTACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAATG--AG-ACGAGA
* * *
161640927 GCTAGTGTAAGACCATGTCTGGGACATGGCCTCAGC-ATGTAAGTACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAATG--AG-ACGAGA
*
161640977 GCTAGTGTAAGACCATGTCTGGGACA
1 GCCAGTGTAAGA-CATGTCTGGGACA
161641003 CGGCATCGTC
Statistics
Matches: 190, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
44 11 0.06
45 16 0.08
46 57 0.30
47 16 0.08
48 14 0.07
49 1 0.01
50 75 0.39
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATGAGACGAGA
Found at i:161640942 original size:50 final size:50
Alignment explanation
Indices: 161640879--161641002 Score: 248
Period size: 50 Copynumber: 2.5 Consensus size: 50
161640869 CGAGACATGT
161640879 TAGTGTAAGACCATGTCTGGGACATGGCCTCAGCATGTAAGTACGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCCTCAGCATGTAAGTACGAGAGC
161640929 TAGTGTAAGACCATGTCTGGGACATGGCCTCAGCATGTAAGTACGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCCTCAGCATGTAAGTACGAGAGC
161640979 TAGTGTAAGACCATGTCTGGGACA
1 TAGTGTAAGACCATGTCTGGGACA
161641003 CGGCATCGTC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (50 bp):
TAGTGTAAGACCATGTCTGGGACATGGCCTCAGCATGTAAGTACGAGAGC
Found at i:161645572 original size:40 final size:40
Alignment explanation
Indices: 161645342--161645581 Score: 331
Period size: 40 Copynumber: 6.0 Consensus size: 40
161645332 TGGATGATAA
* * * *
161645342 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACCAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
161645382 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
161645422 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
161645462 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
161645502 TCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
161645542 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
161645581 C
1 C
161645582 TGGTTCAATC
Statistics
Matches: 179, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
39 10 0.06
40 169 0.94
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:161653535 original size:40 final size:40
Alignment explanation
Indices: 161653441--161653615 Score: 218
Period size: 39 Copynumber: 4.5 Consensus size: 40
161653431 TGGATGATAA
* * *
161653441 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGAC-AGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
161653480 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
161653519 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
161653558 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
161653598 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
161653616 TACTTGGCTT
Statistics
Matches: 122, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
38 32 0.26
39 55 0.45
40 35 0.29
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:161657167 original size:29 final size:29
Alignment explanation
Indices: 161657133--161657235 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
161657123 TAATCAGCCG
** *
161657133 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
161657162 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
161657191 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
161657220 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
161657236 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:161665247 original size:29 final size:29
Alignment explanation
Indices: 161665213--161665315 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
161665203 TAATCAGCCG
** *
161665213 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
161665242 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
161665271 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
161665300 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
161665316 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:161667052 original size:26 final size:26
Alignment explanation
Indices: 161666934--161667055 Score: 95
Period size: 26 Copynumber: 4.6 Consensus size: 26
161666924 ACATGTCGAA
* * *
161666934 GGTATTTCAGTAATTTTGCAAACTGA
1 GGTATTTCGGTAATTTTACAAACTGG
161666960 GGTATTTCGGTAATTTTACAAA-TCGAG
1 GGTATTTCGGTAATTTTACAAACT-G-G
** * * *
161666987 AATATTTGGGTAATTTTATAAACCGGG
1 GGTATTTCGGTAATTTTACAAA-CTGG
**
161667014 GGTACTTT-GGTAATTTTACAATTTGG
1 GGTA-TTTCGGTAATTTTACAAACTGG
*
161667040 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
161667056 GGTAAACTAA
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
25 4 0.05
26 34 0.45
27 33 0.44
28 4 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAAACTGG
Found at i:161667062 original size:53 final size:54
Alignment explanation
Indices: 161666887--161667062 Score: 162
Period size: 53 Copynumber: 3.3 Consensus size: 54
161666877 GAGGGTAAAA
** * * *
161666887 CAGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTAC-ATGTCGAAGGTATTT
1 CAGTAATTTTGTAAACCGGGGGTACTTTGGTAATTTTACAAT-TCGAGGGTATTT
* * * * **
161666941 CAGTAATTTTGCAAA-CTGAGGTA-TTTCGGTAATTTTACAAATCGAGAATATTT
1 CAGTAATTTTGTAAACCGGGGGTACTTT-GGTAATTTTACAATTCGAGGGTATTT
** * *
161666994 GGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAATTTG-GGGTATTT
1 CAGTAATTTTGTAAACCGGGGGTACTTTGGTAATTTTACAATTCGAGGGTATTT
*
161667047 CAGTAATTTGGTAAAC
1 CAGTAATTTTGTAAAC
161667063 TAAAGTATTC
Statistics
Matches: 94, Mismatches: 24, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
52 3 0.03
53 53 0.56
54 35 0.37
55 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (54 bp):
CAGTAATTTTGTAAACCGGGGGTACTTTGGTAATTTTACAATTCGAGGGTATTT
Done.