Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 290 of 332
Found at i:96672403 original size:17 final size:19
Alignment explanation
Indices: 96672378--96672416 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
96672368 ATTTAAAGTG
*
96672378 AAATGAAATTG-CGAAATT
1 AAATGAAATTGTAGAAATT
96672396 AAAT-AAATTGTAGAAATT
1 AAATGAAATTGTAGAAATT
96672414 AAA
1 AAA
96672417 ATGAGGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.56, C:0.03, G:0.13, T:0.28
Consensus pattern (19 bp):
AAATGAAATTGTAGAAATT
Found at i:96673165 original size:10 final size:10
Alignment explanation
Indices: 96673133--96673192 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
96673123 TGAAATTCTA
*
96673133 AAAGATACAT
1 AAAGATAAAT
96673143 ACAA-ATAAAT
1 A-AAGATAAAT
*
96673153 AAAGATAATT
1 AAAGATAAAT
96673163 AAAGATAAAT
1 AAAGATAAAT
96673173 AAAGATAAAT
1 AAAGATAAAT
96673183 GAAA-ATAAAT
1 -AAAGATAAAT
96673193 CCTAAAATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:96674073 original size:9 final size:9
Alignment explanation
Indices: 96674044--96674073 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
96674034 TGAATTTTAC
96674044 AATTTGAAT
1 AATTTGAAT
*
96674053 AACTTGAAT
1 AATTTGAAT
96674062 AATTTGAAT
1 AATTTGAAT
96674071 AAT
1 AAT
96674074 AGATTGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (9 bp):
AATTTGAAT
Found at i:96681515 original size:15 final size:16
Alignment explanation
Indices: 96681488--96681517 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96681478 TCATAAAGGG
96681488 TTAAAAATAATTTTTT
1 TTAAAAATAATTTTTT
96681504 TTAAAAAT-ATTTTT
1 TTAAAAATAATTTTT
96681518 AAAAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAAAATAATTTTTT
Found at i:96686013 original size:26 final size:27
Alignment explanation
Indices: 96685983--96686034 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
96685973 TACACATTTC
*
96685983 ATCATAATTCATATCAT-TACTCAAAA
1 ATCATAATTCATATCATGTAATCAAAA
* *
96686009 ATCATAGTTCATTTCATGTAATCAAA
1 ATCATAATTCATATCATGTAATCAAA
96686035 TACCCTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.37
Consensus pattern (27 bp):
ATCATAATTCATATCATGTAATCAAAA
Found at i:96686430 original size:20 final size:20
Alignment explanation
Indices: 96686398--96686471 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
96686388 CATCATAGAT
96686398 GTGTAAA-AGAGGCACCAAA
1 GTGTAAATAGAGGCACCAAA
*
96686417 GTGTAGATAGAGGCA-CAAA
1 GTGTAAATAGAGGCACCAAA
* *
96686436 -TGTACAATCAAAGGCACCATA
1 GTGTA-AAT-AGAGGCACCAAA
*
96686457 GTGCAAATAGAGGCA
1 GTGTAAATAGAGGCA
96686472 GAGGCACCGA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 4 0.09
19 12 0.27
20 19 0.43
21 6 0.14
22 3 0.07
ACGTcount: A:0.43, C:0.16, G:0.26, T:0.15
Consensus pattern (20 bp):
GTGTAAATAGAGGCACCAAA
Found at i:96689185 original size:31 final size:31
Alignment explanation
Indices: 96689147--96689207 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
96689137 AACCATCACA
96689147 TGTTCATTTAATATTTAACATCTTTATTTCT
1 TGTTCATTTAATATTTAACATCTTTATTTCT
96689178 TGTTCATTTAATATTTAACATCTTTATTTC
1 TGTTCATTTAATATTTAACATCTTTATTTC
96689208 AAGTATTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.57
Consensus pattern (31 bp):
TGTTCATTTAATATTTAACATCTTTATTTCT
Found at i:96689262 original size:13 final size:13
Alignment explanation
Indices: 96689244--96689316 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
96689234 CACATGTTTA
96689244 TCATATAAATATT
1 TCATATAAATATT
* *
96689257 TCATATAAACACT
1 TCATATAAATATT
*
96689270 TCATAT-AATCGTT
1 TCATATAAAT-ATT
**
96689283 TCATATATCTATT
1 TCATATAAATATT
* *
96689296 AACATATAAACATT
1 -TCATATAAATATT
96689310 TCATATA
1 TCATATA
96689317 TCCATTTCAG
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
12 2 0.05
13 32 0.73
14 10 0.23
ACGTcount: A:0.42, C:0.15, G:0.01, T:0.41
Consensus pattern (13 bp):
TCATATAAATATT
Found at i:96689322 original size:13 final size:13
Alignment explanation
Indices: 96689244--96689325 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 13
96689234 CACATGTTTA
* *
96689244 TCATATAAATATT
1 TCATATATACATT
* *
96689257 TCATATAAACACT
1 TCATATATACATT
*
96689270 TCATATA-ATCGTT
1 TCATATATA-CATT
96689283 TCATATAT-CTATT
1 TCATATATAC-ATT
* *
96689296 AACATATAAACATT
1 -TCATATATACATT
*
96689310 TCATATATCCATT
1 TCATATATACATT
96689323 TCA
1 TCA
96689326 GATTACCATT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
12 2 0.04
13 42 0.78
14 9 0.17
15 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.41
Consensus pattern (13 bp):
TCATATATACATT
Found at i:96689423 original size:25 final size:25
Alignment explanation
Indices: 96689395--96689454 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
96689385 ACGCGAGAAC
* *
96689395 AATGCTCACACAAGTTGTGGC-GATA
1 AATGCTCACACAAGCTGTGACTG-TA
* *
96689420 AATGCTCAAACGAGCTGTGACTGTA
1 AATGCTCACACAAGCTGTGACTGTA
96689445 AATGCTCACA
1 AATGCTCACA
96689455 TGAACTGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTGACTGTA
Found at i:96692130 original size:26 final size:26
Alignment explanation
Indices: 96692101--96692160 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
96692091 CTACATCTCG
*
96692101 TGTGAGCAGGCCCATTTCACAACTCA
1 TGTGAGCAAGCCCATTTCACAACTCA
***
96692127 TGTGAGCAAGCCCATTTCATTGCTCA
1 TGTGAGCAAGCCCATTTCACAACTCA
96692153 TGTGAGCA
1 TGTGAGCA
96692161 TTATAGAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (26 bp):
TGTGAGCAAGCCCATTTCACAACTCA
Found at i:96693014 original size:19 final size:18
Alignment explanation
Indices: 96692992--96693027 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
96692982 TTTTTGTTGT
96692992 TAATTTAATTTTTTCATTC
1 TAATTT-ATTTTTTCATTC
*
96693011 TAATTTTTTTTTTCATT
1 TAATTTATTTTTTCATT
96693028 TGTTTGGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATTTATTTTTTCATTC
Found at i:96694968 original size:20 final size:21
Alignment explanation
Indices: 96694935--96694983 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
96694925 TAAAAACTTG
* *
96694935 AAAAGAAGAAAAAGAAATTCAA
1 AAAAAAAGAAAGA-AAATTCAA
96694957 AAAAAAAGAAAGAAAATTCAA
1 AAAAAAAGAAAGAAAATTCAA
96694978 AAAAAA
1 AAAAAA
96694984 TCTTCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.78, C:0.04, G:0.10, T:0.08
Consensus pattern (21 bp):
AAAAAAAGAAAGAAAATTCAA
Found at i:96695556 original size:17 final size:17
Alignment explanation
Indices: 96695530--96695572 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
96695520 AAATGATTTC
*
96695530 ATTTAGTTTTATGTTTT
1 ATTTATTTTTATGTTTT
96695547 ATTTATTTTTATGTTTT
1 ATTTATTTTTATGTTTT
96695564 ATTTATTTT
1 ATTTATTTT
96695573 ATTATGCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (17 bp):
ATTTATTTTTATGTTTT
Found at i:96698968 original size:27 final size:27
Alignment explanation
Indices: 96698938--96698992 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
96698928 GGAAGTACTA
*
96698938 TACTAGTGACTATGTCACATTCACTGT
1 TACTAGTGACTATGCCACATTCACTGT
* * * *
96698965 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTAGTGACTATGCCACATTCACTGT
96698992 T
1 T
96698993 TCTGGCAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (27 bp):
TACTAGTGACTATGCCACATTCACTGT
Found at i:96699103 original size:21 final size:22
Alignment explanation
Indices: 96699079--96699124 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
96699069 TATCCCCACA
* *
96699079 TGGTGTGTTGGTTAG-TATGGG
1 TGGTGTGCTGGCTAGATATGGG
*
96699100 TGGTGTGCTGGCTAGATTTGGG
1 TGGTGTGCTGGCTAGATATGGG
96699122 TGG
1 TGG
96699125 GATGCATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.09, C:0.04, G:0.48, T:0.39
Consensus pattern (22 bp):
TGGTGTGCTGGCTAGATATGGG
Found at i:96700160 original size:20 final size:20
Alignment explanation
Indices: 96700078--96700161 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
96700068 CTTCAGTAAT
* *
96700078 AACAGTAATTTATCCATATC
1 AACAGTAATTCATCCATTTC
*
96700098 AATAGTAATTCATCC-TTATC
1 AACAGTAATTCATCCATT-TC
* * *
96700118 GATAGTAATTCATTCATTTC
1 AACAGTAATTCATCCATTTC
96700138 AACAGTAATTCATCCATTTC
1 AACAGTAATTCATCCATTTC
96700158 AACA
1 AACA
96700162 TAGCTCATTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.02
20 51 0.94
21 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (20 bp):
AACAGTAATTCATCCATTTC
Found at i:96700360 original size:23 final size:23
Alignment explanation
Indices: 96700330--96700455 Score: 105
Period size: 23 Copynumber: 5.3 Consensus size: 23
96700320 CTGATAAATA
96700330 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACG
* *
96700353 GTAAGCTCTATCGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACG
* *
96700375 GTAAGCTC-ATACGAGCTGAATCG
1 GTAAGCTCTAT-TGAGCTGAAACG
* * * *
96700398 GTAAGCTCCAATGAGTTGAAAACA
1 GTAAGCTCTATTGAGCTG-AAACG
96700422 GTAAGCTCTTATT-AGCTGATATATCG
1 GTAAGCTC-TATTGAGCTGA-A-A-CG
96700448 GTAAGCTC
1 GTAAGCTC
96700456 ATACGAGCTG
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.02
22 18 0.22
23 33 0.40
24 17 0.21
25 3 0.04
26 9 0.11
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACG
Found at i:96701797 original size:27 final size:28
Alignment explanation
Indices: 96701767--96701821 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
96701757 TTTATAATTT
*
96701767 CACAATTG-ATTGAGATTCGATTGATGA
1 CACAATTGAATTGAGATTCGAGTGATGA
96701794 CACAATTGAATTGAGATTCGAGTGATGA
1 CACAATTGAATTGAGATTCGAGTGATGA
96701822 ATACTAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (28 bp):
CACAATTGAATTGAGATTCGAGTGATGA
Found at i:96707328 original size:16 final size:16
Alignment explanation
Indices: 96707298--96707327 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96707288 AAGAAAACAA
96707298 AAAGAAAGAATAAAAG
1 AAAGAAAGAATAAAAG
96707314 AAAGAAA-AATAAAA
1 AAAGAAAGAATAAAA
96707328 ACAAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAGAAAGAATAAAAG
Found at i:96716392 original size:23 final size:24
Alignment explanation
Indices: 96716366--96716417 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
96716356 AAGAATGTCC
* *
96716366 AAGAAAATAAAAAGAAAAAA-TAA
1 AAGAAAAGAAAAACAAAAAACTAA
96716389 AAG-AAAGAAAAACAAAAAACTAA
1 AAGAAAAGAAAAACAAAAAACTAA
96716412 AAGAAA
1 AAGAAA
96716418 CTGATAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.56
23 9 0.36
24 2 0.08
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.06
Consensus pattern (24 bp):
AAGAAAAGAAAAACAAAAAACTAA
Found at i:96719139 original size:262 final size:259
Alignment explanation
Indices: 96718685--96719179 Score: 778
Period size: 262 Copynumber: 1.9 Consensus size: 259
96718675 AAACTCGTGG
* *
96718685 GAGAGTAAAAGAAAGAAAAACAAAAAGAAACTGATAAATGGTAAAATAGAAACGTGGGAGAATAA
1 GAGAGTAAAAGAAAGAAAAACAAAAAGAAACTGATAAATGGAAAAATAGAAACATGGGAGAATAA
* *
96718750 GGGAGAGGAAAAAGTGGAATATTTTACCAAATATTTTAAAATTTAAAATAATAAAACTATTTTTA
66 GGGAGAGGAAAAAGTGGAATAATTTACCAAATATTTTAAAATTTAAAATAATAAAAATATTTTTA
** * *
96718815 ATAAATCACTAAATCCTCTCCAAACAACCTTTAACCACTTAACCATTTATCCAAGTAATTGGATC
131 ATAAATCACTAAATCCTCTCCAAACAACCCCTAACCACTCAACCATTTATCCAAGCAATTGGATC
96718880 AAACTCAATTTCAAACAATG-AAACAATACAAACGTGGTAATTTAGAAAAAAATAAACCGGTAA
196 AAACTCAATTTCAAACAATGAAAACAATACAAACGTGGTAATTTAGAAAAAAATAAACCGGTAA
*
96718943 GAGAGTAAACGAAAGAAAAACAAAAAAAAAGAAACTGATAAAT-GAAAAATTAGAAACATGGGAG
1 GAGAGTAAAAGAAAGAAAAAC----AAAAAGAAACTGATAAATGGAAAAA-TAGAAACATGGGAG
* *
96719007 AGTAAGGGAGAGGAAAAAGTGGAATAATTTACCAAATATTTTAAATTTTAAAATAATAAAAATAT
61 AATAAGGGAGAGGAAAAAGTGGAATAATTTACCAAATATTTTAAAATTTAAAATAATAAAAATAT
* *
96719072 TTTTAATAAATCACTAAATCCTCTCCAAACAACCCCTGACCACTCAACCATTTATTCAAGCAATT
126 TTTTAATAAATCACTAAATCCTCTCCAAACAACCCCTAACCACTCAACCATTTATCCAAGCAATT
* * * *
96719137 GGATCAAATTCAATTTCAAACATTGAAAACAGTACAAGCGTGG
191 GGATCAAACTCAATTTCAAACAATGAAAACAATACAAACGTGG
96719180 AAAATTAGCA
Statistics
Matches: 214, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
258 20 0.09
261 5 0.02
262 174 0.81
263 15 0.07
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (259 bp):
GAGAGTAAAAGAAAGAAAAACAAAAAGAAACTGATAAATGGAAAAATAGAAACATGGGAGAATAA
GGGAGAGGAAAAAGTGGAATAATTTACCAAATATTTTAAAATTTAAAATAATAAAAATATTTTTA
ATAAATCACTAAATCCTCTCCAAACAACCCCTAACCACTCAACCATTTATCCAAGCAATTGGATC
AAACTCAATTTCAAACAATGAAAACAATACAAACGTGGTAATTTAGAAAAAAATAAACCGGTAA
Found at i:96720802 original size:18 final size:20
Alignment explanation
Indices: 96720764--96720804 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
96720754 CATTTTAGAG
96720764 TTAAAATAAAATTACTTTTT
1 TTAAAATAAAATTACTTTTT
*
96720784 TTAAAA-AATATTA-TTTTT
1 TTAAAATAAAATTACTTTTT
96720802 TTA
1 TTA
96720805 CTTTGCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAAATAAAATTACTTTTT
Found at i:96721347 original size:28 final size:30
Alignment explanation
Indices: 96721315--96721373 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
96721305 AGCCATTTTT
96721315 AACAC-ATGT-TAAGCAACAAAAATATTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
* * *
96721343 AACACAATTTGTAATCAACAAAAATTTTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
96721373 A
1 A
96721374 TTTCATTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 18 0.69
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (30 bp):
AACACAATGTGTAAGCAACAAAAATATTCC
Found at i:96723444 original size:14 final size:15
Alignment explanation
Indices: 96723425--96723457 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
96723415 TAGAGTGTTG
96723425 TAAAAAATA-AAAAA
1 TAAAAAATATAAAAA
*
96723439 TAAAAAATATATAAA
1 TAAAAAATATAAAAA
96723454 TAAA
1 TAAA
96723458 TGTGACACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAAAATATAAAAA
Found at i:96723831 original size:13 final size:12
Alignment explanation
Indices: 96723809--96723853 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
96723799 TCGTTATATA
*
96723809 AAAAAGTAAAAT
1 AAAAATTAAAAT
96723821 ACAAAATTAAAACT
1 A-AAAATTAAAA-T
96723835 AAAAATCTAAAAT
1 AAAAAT-TAAAAT
96723848 AAAAAT
1 AAAAAT
96723854 AGTAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 21 0.72
14 7 0.24
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAAATTAAAAT
Found at i:96724801 original size:25 final size:26
Alignment explanation
Indices: 96724772--96724820 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
96724762 TAATTATAAT
96724772 TTAATTAA-TATTATATTT-AATAAGA
1 TTAATTAATTATTAT-TTTGAATAAGA
96724797 TTAATTAATTATTATTTTGAATAA
1 TTAATTAATTATTATTTTGAATAA
96724821 TGTTACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTAATTAATTATTATTTTGAATAAGA
Found at i:96748295 original size:41 final size:41
Alignment explanation
Indices: 96748237--96748515 Score: 381
Period size: 41 Copynumber: 6.8 Consensus size: 41
96748227 GAATGTAATA
*
96748237 CAGACGTT-AGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
96748277 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
96748318 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
96748359 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
96748400 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
96748441 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
96748482 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
96748516 ATCTGTTTAA
Statistics
Matches: 222, Mismatches: 9, Indels: 14
0.91 0.04 0.06
Matches are distributed among these distances:
39 3 0.01
40 15 0.07
41 202 0.91
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:96755954 original size:41 final size:41
Alignment explanation
Indices: 96755903--96756182 Score: 390
Period size: 41 Copynumber: 6.8 Consensus size: 41
96755893 GAATGTAATA
*
96755903 CAGACGTTAAGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
96755944 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
96755985 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
96756026 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
96756067 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
96756108 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
96756149 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
96756183 ATCTGTTTAA
Statistics
Matches: 223, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 3 0.01
40 8 0.04
41 210 0.94
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:96759527 original size:38 final size:38
Alignment explanation
Indices: 96759476--96759560 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
96759466 GTAAAAGAAG
*
96759476 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTA-AGTGCTGGAAA
*
96759514 AAATCCGGACTTAAAGTCCGTAGGCTAAGTGCTGGAAA
1 AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAAA
96759552 AATATCCGG
1 AA-ATCCGG
96759561 GTTAAGGACC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 1 0.02
38 36 0.84
39 6 0.14
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAAA
Found at i:96759578 original size:39 final size:38
Alignment explanation
Indices: 96759476--96759578 Score: 111
Period size: 38 Copynumber: 2.7 Consensus size: 38
96759466 GTAAAAGAAG
* *
96759476 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGCCCGCAGGCTATATGCTGGAAA
* *
96759514 AAATCCGGACTTAAAGTCCGTAGGCTA-AGTGCTGGAAA
1 AAATCCGGACTTAAAGCCCGCAGGCTATA-TGCTGGAAA
* *
96759552 AATATCCGG-GTTAAGGACCCGCAGGCT
1 AA-ATCCGGACTTAAAG-CCCGCAGGCT
96759579 CATGCTAGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
37 1 0.02
38 41 0.73
39 14 0.25
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (38 bp):
AAATCCGGACTTAAAGCCCGCAGGCTATATGCTGGAAA
Found at i:96766827 original size:38 final size:38
Alignment explanation
Indices: 96766776--96766860 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
96766766 GTAAAAGAAG
* * *
96766776 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
1 AAATCTGGACTTAAAGTCCGCAAGCTA-AGTGCTGGAAA
96766814 AAATCTGGACTTAAAGTCCGCAAGCTAAGTGCTGGAAA
1 AAATCTGGACTTAAAGTCCGCAAGCTAAGTGCTGGAAA
96766852 AATATCTGG
1 AA-ATCTGG
96766861 GTTAAGGACC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 1 0.02
38 35 0.83
39 6 0.14
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (38 bp):
AAATCTGGACTTAAAGTCCGCAAGCTAAGTGCTGGAAA
Found at i:96770699 original size:18 final size:18
Alignment explanation
Indices: 96770676--96770719 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
96770666 AGACCGAGTT
96770676 TGCTTAAGGATAAGCAAA
1 TGCTTAAGGATAAGCAAA
96770694 TGCTTAAGGATAAGCAAA
1 TGCTTAAGGATAAGCAAA
96770712 TGCTTAAG
1 TGCTTAAG
96770720 TGTGGGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (18 bp):
TGCTTAAGGATAAGCAAA
Found at i:96770947 original size:280 final size:282
Alignment explanation
Indices: 96770412--96770950 Score: 965
Period size: 280 Copynumber: 1.9 Consensus size: 282
96770402 TTGAGGATTT
*
96770412 TGCTTGAGGATAAGCAAACGCTTAAGTGTGGGGCTATTTGATAAGTCGTAATTTATACATATTTT
1 TGCTTAAGGATAAGCAAACGCTTAAGTGTGGGGCTATTTGATAAGTCGTAATTTATACATATTTT
96770477 TACCCCAAGCTTAGCACATTTTTGGATGATTTATCCTTAGATTTGGTGAATTCGATGTTCCTAAT
66 TACCCCAAGCTTAGCACATTTTTGGATGATTTATCCTTAGATTTGGTGAATTCGATGTTCCTAAT
* *
96770542 CCTTTAATTTCATGTTTTATACTTAGATGAGCATAGGAGAGTAAAAAGAGCGAGAAACAGGCCGA
131 CCTTTAATTTCATGTTTTATACTTAGATGAGCATAAGAGAGTAAAAAGAGCGAGAAACAAGCCGA
** *
96770607 AAATGGAGAAAATGGGCCAACATGGGAAATCAACACTGCCTGGACTTCCTCAAACAGGTAGACCG
196 AAACAGAGAAAATGAGCCAACATGGGAAATCAACACTGCCTGGACTTCCTCAAACAGGTAGACCG
96770672 AGTTTGCTTAAGGATAAGCAAA
261 AGTTTGCTTAAGGATAAGCAAA
*
96770694 TGCTTAAGGATAAGCAAATGCTTAAGTGT-GGG-TATTTGATAAGTCGTAATTTATACATATTTT
1 TGCTTAAGGATAAGCAAACGCTTAAGTGTGGGGCTATTTGATAAGTCGTAATTTATACATATTTT
* *
96770757 TACCCCATGCTTAGCACATTTTTGGATGATTTATCTTTAGATTTGGTGAATTCGATGTTCCTAAT
66 TACCCCAAGCTTAGCACATTTTTGGATGATTTATCCTTAGATTTGGTGAATTCGATGTTCCTAAT
96770822 CCTTTAATTTCATGTTTTATACTTAGATGAGCATAAGAGAGTAAAAAGAGCGAGAAACAAGCCGA
131 CCTTTAATTTCATGTTTTATACTTAGATGAGCATAAGAGAGTAAAAAGAGCGAGAAACAAGCCGA
* *
96770887 AAACAGAGAAAATGAGCCAACGTGGGAAATCAACACTGCCTTGACTTCCTCAAACAGGTAGACC
196 AAACAGAGAAAATGAGCCAACATGGGAAATCAACACTGCCTGGACTTCCTCAAACAGGTAGACC
96770951 ACACTATCGT
Statistics
Matches: 246, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
280 216 0.88
281 3 0.01
282 27 0.11
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (282 bp):
TGCTTAAGGATAAGCAAACGCTTAAGTGTGGGGCTATTTGATAAGTCGTAATTTATACATATTTT
TACCCCAAGCTTAGCACATTTTTGGATGATTTATCCTTAGATTTGGTGAATTCGATGTTCCTAAT
CCTTTAATTTCATGTTTTATACTTAGATGAGCATAAGAGAGTAAAAAGAGCGAGAAACAAGCCGA
AAACAGAGAAAATGAGCCAACATGGGAAATCAACACTGCCTGGACTTCCTCAAACAGGTAGACCG
AGTTTGCTTAAGGATAAGCAAA
Found at i:96772202 original size:48 final size:48
Alignment explanation
Indices: 96772150--96772271 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
96772140 AATGCCGATA
* * ** *
96772150 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCTCATAACATGGCCGACG
* * * * * *
96772198 CCATGTTCCAAATATGGTCGTACACTGACTCTCATATCGTGGCCGACG
1 CCATGTCCCAGACATGGTCTTACACTGACTCTCATAACATGGCCGACG
*
96772246 CCATGTCCTAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
96772272 AGCACACATA
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCTCATAACATGGCCGACG
Found at i:96772752 original size:16 final size:16
Alignment explanation
Indices: 96772731--96772761 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
96772721 AGGATGAAAT
96772731 AAAAATAAAATTAAAG
1 AAAAATAAAATTAAAG
96772747 AAAAATAAAATTAAA
1 AAAAATAAAATTAAA
96772762 AGTAGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAAATAAAATTAAAG
Found at i:96774376 original size:19 final size:20
Alignment explanation
Indices: 96774348--96774388 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
96774338 TGTGGTGCGC
*
96774348 AAGGGTGAGA-AGAGGGGAG
1 AAGGGAGAGAGAGAGGGGAG
96774367 AAGGGAGAGAGAGAGGGGAG
1 AAGGGAGAGAGAGAGGGGAG
96774387 AA
1 AA
96774389 AAATGAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.56, T:0.02
Consensus pattern (20 bp):
AAGGGAGAGAGAGAGGGGAG
Found at i:96779111 original size:20 final size:21
Alignment explanation
Indices: 96779068--96779113 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
96779058 ACTGTTTTGT
96779068 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
96779088 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
96779107 TATGGGC
1 TATGGGC
96779114 AAAGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:96783110 original size:20 final size:20
Alignment explanation
Indices: 96783073--96783110 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
96783063 TGATGTGGAA
*
96783073 AGTTAACTGCTACAGTGGCC
1 AGTTAACTGCCACAGTGGCC
96783093 AGTTAACTTGCCAC-GTGG
1 AGTTAAC-TGCCACAGTGG
96783111 GATGTCCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (20 bp):
AGTTAACTGCCACAGTGGCC
Found at i:96787616 original size:23 final size:24
Alignment explanation
Indices: 96787586--96787634 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
96787576 CACACTAAAA
*
96787586 TATAGGT-GGGGTGAATAGAACCT
1 TATAGGTGGGGGCGAATAGAACCT
96787609 TATAGGTGGGGGCGAATAGAACCT
1 TATAGGTGGGGGCGAATAGAACCT
96787633 TA
1 TA
96787635 AAGAAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.31, C:0.10, G:0.35, T:0.24
Consensus pattern (24 bp):
TATAGGTGGGGGCGAATAGAACCT
Found at i:96787769 original size:33 final size:33
Alignment explanation
Indices: 96787732--96787810 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
96787722 CTTATTTCTT
*
96787732 TATTA-AATTTTATTTCA-AATGTATAACAATATA
1 TATTATAA-TTTATTACATAATGT-TAACAATATA
*
96787765 TATTATAATTTATTACATAATGTTTACAATATA
1 TATTATAATTTATTACATAATGTTAACAATATA
96787798 GT-TTATATATTTA
1 -TATTATA-ATTTA
96787811 AATTAAGCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 27 0.68
34 13 0.32
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (33 bp):
TATTATAATTTATTACATAATGTTAACAATATA
Found at i:96789075 original size:34 final size:34
Alignment explanation
Indices: 96789032--96789100 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
96789022 GAGCAGTTCT
96789032 CAACAAGTTCTCATTTGTTATAAACCTCCCTATC
1 CAACAAGTTCTCATTTGTTATAAACCTCCCTATC
96789066 CAACAAGTTCTCATTTGTTATAAACCTCCCTATC
1 CAACAAGTTCTCATTTGTTATAAACCTCCCTATC
96789100 C
1 C
96789101 TTTTATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.06, T:0.35
Consensus pattern (34 bp):
CAACAAGTTCTCATTTGTTATAAACCTCCCTATC
Found at i:96790288 original size:5 final size:6
Alignment explanation
Indices: 96790259--96790294 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
96790249 AAACCTAGAG
96790259 AAAACT AAAACT AAAACT AAAACT -AAACT -AAACT AA
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AA
96790295 TGTGTGTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAACT
Found at i:96792546 original size:5 final size:5
Alignment explanation
Indices: 96792536--96792578 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
96792526 ATCCTTATTT
96792536 AAATA AAATA AAGTGATA AAATA AAATA AAATA AAAGTA AAAT
1 AAATA AAATA AA---ATA AAATA AAATA AAATA AAA-TA AAAT
96792579 CCATATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 24 0.71
6 5 0.15
8 5 0.15
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:96797066 original size:16 final size:18
Alignment explanation
Indices: 96797031--96797068 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
96797021 ATCTTTATTT
*
96797031 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
96797049 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
96797065 AAAT
1 AAAT
96797069 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:96804083 original size:21 final size:22
Alignment explanation
Indices: 96804047--96804088 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
96804037 TGTTATATTA
*
96804047 TATGATGAAATGATGATTTGAG
1 TATGATGAAATGATGAATTGAG
*
96804069 TATGAT-AAATTATGAATTGA
1 TATGATGAAATGATGAATTGA
96804089 ATCATATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (22 bp):
TATGATGAAATGATGAATTGAG
Found at i:96810233 original size:15 final size:15
Alignment explanation
Indices: 96810213--96810263 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
96810203 TCATATTTAA
96810213 AAAAATAAAAATTTT
1 AAAAATAAAAATTTT
* *
96810228 AAAAATTATAATTGTT
1 AAAAATAAAAATT-TT
96810244 -AAAATAAAAACTATTT
1 AAAAATAAAAA-T-TTT
96810260 AAAA
1 AAAA
96810264 TTCAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 19 0.68
16 5 0.18
17 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAAATAAAAATTTT
Found at i:96810288 original size:17 final size:17
Alignment explanation
Indices: 96810267--96810305 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
96810257 TTTAAAATTC
*
96810267 AAAAATAAAAAATATTTT
1 AAAAATAAAAAAT-TTCT
*
96810285 AAAAATAGAAAATTTCT
1 AAAAATAAAAAATTTCT
96810302 AAAA
1 AAAA
96810306 TTTAGTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAATAAAAAATTTCT
Found at i:96810297 original size:25 final size:24
Alignment explanation
Indices: 96810244--96810290 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
96810234 TATAATTGTT
* *
96810244 AAAATAAAAACTATTTAAAATTCA
1 AAAATAAAAAATATTTAAAAATCA
96810268 AAAATAAAAAATATTTTAAAAAT
1 AAAATAAAAAATA-TTTAAAAAT
96810291 AGAAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATAAAAAATATTTAAAAATCA
Found at i:96812262 original size:18 final size:18
Alignment explanation
Indices: 96812239--96812276 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
96812229 AATATATATT
96812239 AACCCAACTACCCAACCC
1 AACCCAACTACCCAACCC
*
96812257 AACCCAATTACCCAACCC
1 AACCCAACTACCCAACCC
96812275 AA
1 AA
96812277 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.50, G:0.00, T:0.08
Consensus pattern (18 bp):
AACCCAACTACCCAACCC
Found at i:96812269 original size:13 final size:13
Alignment explanation
Indices: 96812253--96812277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96812243 CAACTACCCA
96812253 ACCCAACCCAATT
1 ACCCAACCCAATT
96812266 ACCCAACCCAAT
1 ACCCAACCCAAT
96812278 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:96812385 original size:18 final size:18
Alignment explanation
Indices: 96812362--96812411 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
96812352 TTTATACAAA
*
96812362 TAATTCGGTTAATTT-GAG
1 TAATTCGGATAATTTAG-G
*
96812380 TAATTCGGGTAATTTAGG
1 TAATTCGGATAATTTAGG
96812398 TAATTCGGATAATT
1 TAATTCGGATAATT
96812412 CGGTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (18 bp):
TAATTCGGATAATTTAGG
Found at i:96812419 original size:18 final size:17
Alignment explanation
Indices: 96812362--96812420 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
96812352 TTTATACAAA
* *
96812362 TAATTCGGTTAATTTGAG
1 TAATTCGGATAATTCG-G
* *
96812380 TAATTCGGGTAATTTAGG
1 TAATTCGGATAA-TTCGG
96812398 TAATTCGGATAATTCGG
1 TAATTCGGATAATTCGG
96812415 TTAATT
1 -TAATT
96812421 TGATTAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.11
18 28 0.80
19 3 0.09
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (17 bp):
TAATTCGGATAATTCGG
Found at i:96812428 original size:27 final size:27
Alignment explanation
Indices: 96812380--96812438 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
96812370 TTAATTTGAG
*
96812380 TAATTCGGGTAATTTAGGTAATTCGGA
1 TAATTCGGGTAATTTAGGTAATCCGGA
* * *
96812407 TAATTCGGTTAATTT-GATTAATCCGGT
1 TAATTCGGGTAATTTAG-GTAATCCGGA
96812434 TAATT
1 TAATT
96812439 TTATACTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TAATTCGGGTAATTTAGGTAATCCGGA
Found at i:96814445 original size:34 final size:34
Alignment explanation
Indices: 96814402--96814471 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
96814392 TTGTTGTTTA
96814402 AATAATCCTAATTTAAGAAAAGAAAAATAAAGAG
1 AATAATCCTAATTTAAGAAAAGAAAAATAAAGAG
96814436 AATAATCCTAATTTAAGAAAAGAAAAATAAAGAG
1 AATAATCCTAATTTAAGAAAAGAAAAATAAAGAG
96814470 AA
1 AA
96814472 GAATAAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (34 bp):
AATAATCCTAATTTAAGAAAAGAAAAATAAAGAG
Found at i:96814770 original size:14 final size:14
Alignment explanation
Indices: 96814736--96814762 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
96814726 GCTACTATTT
96814736 TACTATTATGTTGA
1 TACTATTATGTTGA
96814750 TACTATTATGTTG
1 TACTATTATGTTG
96814763 TTATTATTTA
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:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGA
Found at i:96816422 original size:21 final size:19
Alignment explanation
Indices: 96816389--96816432 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
96816379 TGAAATAATA
96816389 ATAAAACAATAATTGAAAT
1 ATAAAACAATAATTGAAAT
96816408 ATAAAATCAAATAATTGAAAT
1 ATAAAA-C-AATAATTGAAAT
96816429 -TAAA
1 ATAAA
96816433 TTGGTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 5 0.22
21 12 0.52
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
ATAAAACAATAATTGAAAT
Found at i:96818128 original size:15 final size:17
Alignment explanation
Indices: 96818108--96818144 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
96818098 ATACATACAG
96818108 TTTTTAT-T-TATATAC
1 TTTTTATATATATATAC
96818123 TTTTTATATATATATAC
1 TTTTTATATATATATAC
96818140 TTTTT
1 TTTTT
96818145 TAATTCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 1 0.05
17 12 0.60
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATATATATATAC
Found at i:96824614 original size:25 final size:24
Alignment explanation
Indices: 96824570--96824624 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 24
96824560 AGTTCCTCTT
96824570 TTTTTTCATTTTTATTAATTTG-A
1 TTTTTTCATTTTTATTAATTTGAA
96824593 TTTTTT-ATTTTTTAGTTCAATTTGAA
1 TTTTTTCA-TTTTTA-TT-AATTTGAA
96824619 TTTTTT
1 TTTTTT
96824625 TTTAAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.04
23 12 0.43
24 2 0.07
25 6 0.21
26 7 0.25
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (24 bp):
TTTTTTCATTTTTATTAATTTGAA
Found at i:96827561 original size:15 final size:17
Alignment explanation
Indices: 96827521--96827566 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
96827511 TTTATGTTAA
*
96827521 ATATATTTAATAATTTT
1 ATATAATTAATAATTTT
*
96827538 ATGTAATTAA-AATTTT
1 ATATAATTAATAATTTT
96827554 A-ATAATTAATAAT
1 ATATAATTAATAAT
96827567 ATAATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.28
16 10 0.40
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATAATTAATAATTTT
Found at i:96828980 original size:65 final size:65
Alignment explanation
Indices: 96828876--96829009 Score: 268
Period size: 65 Copynumber: 2.1 Consensus size: 65
96828866 GTGATGTCCA
96828876 CAAAATTAATTAAAAATTCGAGTAATGCAAGTGCACTTATCAATTAATAGTATAGCTACGGTGAG
1 CAAAATTAATTAAAAATTCGAGTAATGCAAGTGCACTTATCAATTAATAGTATAGCTACGGTGAG
96828941 CAAAATTAATTAAAAATTCGAGTAATGCAAGTGCACTTATCAATTAATAGTATAGCTACGGTGAG
1 CAAAATTAATTAAAAATTCGAGTAATGCAAGTGCACTTATCAATTAATAGTATAGCTACGGTGAG
96829006 CAAA
1 CAAA
96829010 TGTATCGTTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (65 bp):
CAAAATTAATTAAAAATTCGAGTAATGCAAGTGCACTTATCAATTAATAGTATAGCTACGGTGAG
Found at i:96830201 original size:21 final size:21
Alignment explanation
Indices: 96830181--96830226 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
96830171 TATTCAAATA
96830181 ATTATC-GAACATATTATAAT
1 ATTATCAGAACATATTATAAT
* * *
96830201 ATAATCATAATATATTATAAT
1 ATTATCAGAACATATTATAAT
96830222 ATTAT
1 ATTAT
96830227 AATATTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTATCAGAACATATTATAAT
Found at i:96830225 original size:8 final size:8
Alignment explanation
Indices: 96830191--96830236 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
96830181 ATTATCGAAC
96830191 ATATTATA
1 ATATTATA
* *
96830199 ATATAATC
1 ATATTATA
96830207 ATA--AT-
1 ATATTATA
96830212 ATATTATA
1 ATATTATA
96830220 ATATTATA
1 ATATTATA
96830228 ATATTATA
1 ATATTATA
96830236 A
1 A
96830237 CTGAAGCAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 2 0.06
8 26 0.79
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (8 bp):
ATATTATA
Found at i:96830235 original size:21 final size:21
Alignment explanation
Indices: 96830191--96830235 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
96830181 ATTATCGAAC
*
96830191 ATATTATAATATAATCATAAT
1 ATATTATAATATAATAATAAT
* *
96830212 ATATTATAATATTATAATATT
1 ATATTATAATATAATAATAAT
96830233 ATA
1 ATA
96830236 ACTGAAGCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTATAATATAATAATAAT
Found at i:96834613 original size:23 final size:25
Alignment explanation
Indices: 96834561--96834619 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
96834551 ATATTATAAA
96834561 AATATTAT-TTAATTAAAACATTAT
1 AATATTATATTAATTAAAACATTAT
96834585 AA-ATTATATTAATT-AAA-ATTA-
1 AATATTATATTAATTAAAACATTAT
96834606 AGATATTATATTAA
1 A-ATATTATATTAA
96834620 AGGAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 5 0.16
23 18 0.56
24 8 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
AATATTATATTAATTAAAACATTAT
Found at i:96834614 original size:30 final size:27
Alignment explanation
Indices: 96834551--96834615 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 27
96834541 TTCTTGATTT
*
96834551 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* * *
96834578 ACATTATAAATTATATTAATTAAAATTAAG
1 ATATTATAAA-AATATT-ATT-AAATTAAA
96834608 ATATTATA
1 ATATTATA
96834616 TTAAAGGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 9 0.30
28 5 0.17
29 3 0.10
30 13 0.43
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:96836549 original size:38 final size:39
Alignment explanation
Indices: 96836447--96836549 Score: 102
Period size: 38 Copynumber: 2.6 Consensus size: 39
96836437 ACTTCAACCT
**
96836447 CAATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATT
1 CAATGAGACACTGGGTGTCA-ACT-TTACTTCGGATAGAGC
* ** * *
96836488 CGATGAGGTACTGGGTG-CCACTTTACTTCGGCTAG-GC
1 CAATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
96836525 CAATGAGACACTGTGTGTCAACTTT
1 CAATGAGACACTGGGTGTCAACTTT
96836550 GTTTCGAACT
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
37 13 0.27
38 18 0.37
39 3 0.06
40 1 0.02
41 14 0.29
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (39 bp):
CAATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:96838730 original size:43 final size:43
Alignment explanation
Indices: 96838618--96838740 Score: 212
Period size: 42 Copynumber: 2.9 Consensus size: 43
96838608 CCAGATAACG
*
96838618 ATGCCAATGTCCCAGACATGGTCTTACACGTATTTACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTATTCACAATACA
96838661 ATGCCAAT-TCCCAGACATGGTCTTACACGTATTCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTATTCACAATACA
* *
96838703 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTATTCACA
96838741 TCTCGGTAAC
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
42 41 0.54
43 35 0.46
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTATTCACAATACA
Found at i:96842746 original size:170 final size:170
Alignment explanation
Indices: 96842447--96842771 Score: 512
Period size: 170 Copynumber: 1.9 Consensus size: 170
96842437 GATTTAGTCT
*
96842447 TTTTTCTCAAATTAAGCTATTAAACGATAAAATTAGCTCACGAAATTTTCACACATATATATTCA
1 TTTTTCTCAAATTAAGCTATTAAACGATAAAATTAACTCACGAAATTTTCACACATATATATTCA
96842512 CATGCTGTAAACACCAAAAATAATATAAAATAAATTTTCAACCTCAGATTTATGGTCCCGAAACC
66 CATGCTGTAAACACCAAAAATAATATAAAATAAATTTTCAACCTCAGATTTATGGTCCCGAAACC
*
96842577 ATTGTTCCGATTTAACTAAAACCGGATTGTTACATAATCC
131 ATAGTTCCGATTTAACTAAAACCGGATTGTTACATAATCC
*
96842617 TTTTTCTCAAATTGAGCTATTAAACGATAAAATTAACTCACGAAATTTTCACACATATATATTCA
1 TTTTTCTCAAATTAAGCTATTAAACGATAAAATTAACTCACGAAATTTTCACACATATATATTCA
* * * * **
96842682 TATGCTGTAAACACCAGAAATAATATTAAAAT-AATTTT-ATGATCTCA-ATTTTTGGTTTCGAA
66 CATGCTGTAAACACCAAAAATAATA-TAAAATAAATTTTCA--ACCTCAGATTTATGGTCCCGAA
*
96842744 ACCATAGTTCCGATTTAGCTAAAACCGG
128 ACCATAGTTCCGATTTAACTAAAACCGG
96842772 GCTATTACAC
Statistics
Matches: 142, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
169 1 0.01
170 130 0.92
171 11 0.08
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (170 bp):
TTTTTCTCAAATTAAGCTATTAAACGATAAAATTAACTCACGAAATTTTCACACATATATATTCA
CATGCTGTAAACACCAAAAATAATATAAAATAAATTTTCAACCTCAGATTTATGGTCCCGAAACC
ATAGTTCCGATTTAACTAAAACCGGATTGTTACATAATCC
Found at i:96846251 original size:31 final size:31
Alignment explanation
Indices: 96846216--96846279 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
96846206 TAATCCTTAA
*
96846216 AACATGTTTTTCCCTGATCTTAAACTAAATT
1 AACATGTTTTTCCCCGATCTTAAACTAAATT
*
96846247 AACATGTTTTTCCCCGATCTTGAACTAAATT
1 AACATGTTTTTCCCCGATCTTAAACTAAATT
96846278 AA
1 AA
96846280 TAATTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (31 bp):
AACATGTTTTTCCCCGATCTTAAACTAAATT
Found at i:96857775 original size:38 final size:38
Alignment explanation
Indices: 96857728--96857801 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
96857718 CAAGATTGGT
* *
96857728 ACATTTTGTTCATATGGGAACCA-TTTGTTGATAAGAGA
1 ACATCTTGTTCACATGGGAA-CATTTTGTTGATAAGAGA
* *
96857766 ACATCTTGTTTACATTGGAACATTTTGTTGATAAGA
1 ACATCTTGTTCACATGGGAACATTTTGTTGATAAGA
96857802 TGCATTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 2 0.06
38 29 0.94
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (38 bp):
ACATCTTGTTCACATGGGAACATTTTGTTGATAAGAGA
Found at i:96858437 original size:27 final size:27
Alignment explanation
Indices: 96858417--96858469 Score: 97
Period size: 27 Copynumber: 1.9 Consensus size: 27
96858407 TAAACAAATT
96858417 TAAATAAATAAATAAAATAAAAATATG
1 TAAATAAATAAATAAAATAAAAATATG
96858444 TAAATAAATAAATAAAATTAAAAATA
1 TAAATAAATAAATAAAA-TAAAAATA
96858470 CAACTTCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (27 bp):
TAAATAAATAAATAAAATAAAAATATG
Found at i:96858825 original size:14 final size:15
Alignment explanation
Indices: 96858783--96858825 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
96858773 AAATATTATT
*
96858783 AAAT-ATCAAATAATA
1 AAATAATCAAA-ATTA
96858798 AAATAATCAAAATTA
1 AAATAATCAAAATTA
96858813 AAATAAT-AAAATT
1 AAATAATCAAAATT
96858826 GGATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.23
15 14 0.54
16 6 0.23
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAATCAAAATTA
Found at i:96860050 original size:16 final size:18
Alignment explanation
Indices: 96860029--96860066 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
96860019 TAAAAATATA
96860029 ATTTTAT-TATTT-TAAT
1 ATTTTATATATTTATAAT
96860045 ATTTTATATATTTATAAT
1 ATTTTATATATTTATAAT
96860063 -TTTT
1 ATTTT
96860067 GAAAGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTATATATTTATAAT
Found at i:96860095 original size:30 final size:31
Alignment explanation
Indices: 96860055--96860126 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 31
96860045 ATTTTATATA
*
96860055 TTTATAATTTTTGAAAGA-TTAAAATA-AATT
1 TTTATTATTTTT-AAAGAGTTAAAATATAATT
96860085 TTTATTATTTTTAAAGAGTTAAAATATAATT
1 TTTATTATTTTTAAAGAGTTAAAATATAATT
96860116 TTATAATTATT
1 TT-T-ATTATT
96860127 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 5 0.14
30 19 0.51
31 6 0.16
32 1 0.03
33 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (31 bp):
TTTATTATTTTTAAAGAGTTAAAATATAATT
Found at i:96860625 original size:20 final size:20
Alignment explanation
Indices: 96860593--96860631 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
96860583 CATTTGAAAC
*
96860593 TTCTATAAATATATTTATAA
1 TTCTATAAATATATATATAA
96860613 TTCTA-AAATTATATATATA
1 TTCTATAAA-TATATATATA
96860632 TGAATAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCTATAAATATATATATAA
Found at i:96869215 original size:6 final size:6
Alignment explanation
Indices: 96869206--96869231 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
96869196 CTCACCTCAA
96869206 CCTCGT CCTCGT CCTCGT CCTCGT CC
1 CCTCGT CCTCGT CCTCGT CCTCGT CC
96869232 CAATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.15, T:0.31
Consensus pattern (6 bp):
CCTCGT
Found at i:96873097 original size:44 final size:44
Alignment explanation
Indices: 96873041--96873132 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
96873031 GAATTAAACT
*
96873041 GAAGTAACAGTACGACACATATGGTGCCTCATCGACTCGAA-GTC
1 GAAGTAACAGTACGACACATATAGTGCCTCATCGACTC-AAGGTC
* *
96873085 GAAGTAATAGTACGACACTTATAGTGCCTCATCGACTCAAGGTC
1 GAAGTAACAGTACGACACATATAGTGCCTCATCGACTCAAGGTC
96873129 GAAG
1 GAAG
96873133 CATCCCTGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (44 bp):
GAAGTAACAGTACGACACATATAGTGCCTCATCGACTCAAGGTC
Found at i:96873279 original size:13 final size:13
Alignment explanation
Indices: 96873261--96873292 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
96873251 TTCACAATAA
96873261 TAAAACCCTAATT
1 TAAAACCCTAATT
96873274 TAAAACCCTAATT
1 TAAAACCCTAATT
96873287 TAAAAC
1 TAAAAC
96873293 TTCTTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAACCCTAATT
Found at i:96873584 original size:13 final size:14
Alignment explanation
Indices: 96873562--96873591 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
96873552 CTAATTTCTC
96873562 CTTTTATTTTCTTT
1 CTTTTATTTTCTTT
96873576 CTTTT-TTTTCTTT
1 CTTTTATTTTCTTT
96873589 CTT
1 CTT
96873592 CTGTTTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (14 bp):
CTTTTATTTTCTTT
Found at i:96873973 original size:20 final size:20
Alignment explanation
Indices: 96873950--96874021 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
96873940 TTAATTTATT
*
96873950 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATAATAA
*
96873970 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATAATAA
*
96873990 TTTGATAGAATAATAATAATAA
1 TTT-A-ATAATAATAATAATAA
*
96874012 -TAAATAATAA
1 TTTAATAATAA
96874022 ATATCTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 8 0.19
20 20 0.47
21 2 0.05
22 11 0.26
23 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (20 bp):
TTTAATAATAATAATAATAA
Found at i:96881398 original size:18 final size:17
Alignment explanation
Indices: 96881375--96881411 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
96881365 GCTTATGTTG
*
96881375 TTCTTTCTTTCATTTTCT
1 TTCTTTATTTCA-TTTCT
96881393 TTCTTTATTTCATTTCT
1 TTCTTTATTTCATTTCT
96881410 TT
1 TT
96881412 TATTCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (17 bp):
TTCTTTATTTCATTTCT
Found at i:96881408 original size:13 final size:14
Alignment explanation
Indices: 96881375--96881411 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
96881365 GCTTATGTTG
96881375 TTCTTTCTTTCATT
1 TTCTTTCTTTCATT
96881389 TTCTTTCTTT-A-T
1 TTCTTTCTTTCATT
96881401 TTCATTTCTTT
1 TTC-TTTCTTT
96881412 TATTCTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 8 0.36
14 10 0.45
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTTCTTTCATT
Found at i:96881441 original size:3 final size:3
Alignment explanation
Indices: 96881433--96881468 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
96881423 TTTATTAACT
96881433 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96881469 AGATCTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:96881759 original size:16 final size:16
Alignment explanation
Indices: 96881714--96881763 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
96881704 AGTCCTAATT
*
96881714 TAATAAT-ATAAATTA
1 TAATAATGATAAATAA
*
96881729 TAAT-TTGATAGAATAA
1 TAATAATGATA-AATAA
96881745 TAATAATGATAAATAA
1 TAATAATGATAAATAA
96881761 TAA
1 TAA
96881764 ATATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TAATAATGATAAATAA
Found at i:96889365 original size:34 final size:35
Alignment explanation
Indices: 96889312--96889378 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
96889302 CCTAGCTACA
*
96889312 GTCTCAGTCTTCTAAAGTTTTCAGT-TTTCCCTATT
1 GTCTCAGTCTTCTAAAG-TTTCAGTATTACCCTATT
*
96889347 GTCTCAGT-TTCTACAGTTTCAGTATTACCCTA
1 GTCTCAGTCTTCTAAAGTTTCAGTATTACCCTA
96889379 ACTACAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 7 0.24
34 14 0.48
35 8 0.28
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.45
Consensus pattern (35 bp):
GTCTCAGTCTTCTAAAGTTTCAGTATTACCCTATT
Found at i:96890551 original size:61 final size:61
Alignment explanation
Indices: 96890432--96890551 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 61
96890422 CTATTCAGAA
** *
96890432 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATACCAATCTGGGCCATAGCCCATTACAGT
* * * *
96890493 ATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGCCAATCTGGGCCGTATCCCTATTACA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATACCAATCTGGGCCATAGCCC-ATTACA
96890552 AGTCGAGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 30 0.60
61 20 0.40
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (61 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATACCAATCTGGGCCATAGCCCATTACAGT
Found at i:96899599 original size:70 final size:69
Alignment explanation
Indices: 96899514--96899655 Score: 171
Period size: 69 Copynumber: 2.0 Consensus size: 69
96899504 GCACTGGGTA
* * * *
96899514 CAACTTCTGTCAATTTATCTGACTAGCAT-TTGGGTACAACCATCGTCT-GTTATTCGATTAGCG
1 CAACTTCTGTCAATTTATCTGACTAG--TGCTGGGCACAACCATCGT-TGGTTATCCGACTAGCG
96899577 CTGGACG
63 CTGGACG
* * *
96899584 CAACTTTTGTTAATTTATTTGACTAGTGCTGGGCACAACCATCGTTGGTTATCCGACTAGCGCTG
1 CAACTTCTGTCAATTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTTATCCGACTAGCGCTG
*
96899649 GGCG
66 GACG
96899653 CAA
1 CAA
96899656 AACATTGTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
68 2 0.03
69 37 0.60
70 23 0.37
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (69 bp):
CAACTTCTGTCAATTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTTATCCGACTAGCGCTG
GACG
Found at i:96903242 original size:13 final size:13
Alignment explanation
Indices: 96903224--96903249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96903214 AAAAAAGTTC
96903224 AAAATAATAGGTT
1 AAAATAATAGGTT
96903237 AAAATAATAGGTT
1 AAAATAATAGGTT
96903250 TTTTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AAAATAATAGGTT
Found at i:96904930 original size:97 final size:97
Alignment explanation
Indices: 96904764--96904958 Score: 390
Period size: 97 Copynumber: 2.0 Consensus size: 97
96904754 AACACCCCTA
96904764 CCCAATCTAAAGACTTGATTGGATAGAGGATACTGCATTCCGCACCTAAGCAACAATTGGAGTGT
1 CCCAATCTAAAGACTTGATTGGATAGAGGATACTGCATTCCGCACCTAAGCAACAATTGGAGTGT
96904829 CAGACTATCAGAGCCTTAAACAAAACAAATTG
66 CAGACTATCAGAGCCTTAAACAAAACAAATTG
96904861 CCCAATCTAAAGACTTGATTGGATAGAGGATACTGCATTCCGCACCTAAGCAACAATTGGAGTGT
1 CCCAATCTAAAGACTTGATTGGATAGAGGATACTGCATTCCGCACCTAAGCAACAATTGGAGTGT
96904926 CAGACTATCAGAGCCTTAAACAAAACAAATTG
66 CAGACTATCAGAGCCTTAAACAAAACAAATTG
96904958 C
1 C
96904959 TCTAATAGGT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (97 bp):
CCCAATCTAAAGACTTGATTGGATAGAGGATACTGCATTCCGCACCTAAGCAACAATTGGAGTGT
CAGACTATCAGAGCCTTAAACAAAACAAATTG
Found at i:96908275 original size:23 final size:23
Alignment explanation
Indices: 96908245--96908288 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
96908235 ACAAAAGTAT
96908245 AATAGTGATGACACCACGTTTTA
1 AATAGTGATGACACCACGTTTTA
96908268 AATAGTGATGACACCACGTTT
1 AATAGTGATGACACCACGTTT
96908289 CTCATCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (23 bp):
AATAGTGATGACACCACGTTTTA
Found at i:96910053 original size:3 final size:3
Alignment explanation
Indices: 96910045--96910077 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
96910035 ATATTTTTAA
96910045 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
96910078 CTTGGATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:96911123 original size:100 final size:100
Alignment explanation
Indices: 96910950--96911145 Score: 356
Period size: 100 Copynumber: 2.0 Consensus size: 100
96910940 TATCCTCATG
* *
96910950 CAATACACCAATGATGATGAAGCTCTTCAATATTGGCCTCAAGAAATCAAGTGAGATACATAAGT
1 CAATACACCAATGATGATGAAGCTCTTCAACATTGGCCTCAAGAAATCAAGTGAGATACATAAAT
*
96911015 TAATTGCTGCTTGTCTATTTGACCCTTTTATATGT
66 TAATTGCTGCTTATCTATTTGACCCTTTTATATGT
*
96911050 CAATACACCAATGATGATGAAGCTCTTCAACGTTGGCCTCAAGAAATCAAGTGAGATACATAAAT
1 CAATACACCAATGATGATGAAGCTCTTCAACATTGGCCTCAAGAAATCAAGTGAGATACATAAAT
96911115 TAATTGCTGCTTATCTATTTGACCCTTTTAT
66 TAATTGCTGCTTATCTATTTGACCCTTTTAT
96911146 GTGTTTTCTT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (100 bp):
CAATACACCAATGATGATGAAGCTCTTCAACATTGGCCTCAAGAAATCAAGTGAGATACATAAAT
TAATTGCTGCTTATCTATTTGACCCTTTTATATGT
Found at i:96912335 original size:22 final size:19
Alignment explanation
Indices: 96912310--96912349 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
96912300 TGTTTTTTTC
96912310 TTTCATTTATTATTATTTTAAT
1 TTTCA-TTATT-TT-TTTTAAT
96912332 TTTCATTATTTTTTTTAA
1 TTTCATTATTTTTTTTAA
96912350 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 5 0.28
22 5 0.28
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTCATTATTTTTTTTAAT
Found at i:96912921 original size:25 final size:24
Alignment explanation
Indices: 96912893--96912946 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
96912883 TGATGTAATA
*
96912893 ATTTTTTAAAATTTTAAATTTTTTG
1 ATTTTTTAAAATATT-AATTTTTTG
* *
96912918 ATTTTTTAAAATATTATTTTTTTT
1 ATTTTTTAAAATATTAATTTTTTG
96912942 ATTTT
1 ATTTT
96912947 AAGTTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
ATTTTTTAAAATATTAATTTTTTG
Found at i:96917812 original size:18 final size:18
Alignment explanation
Indices: 96917789--96917823 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
96917779 ATAGCAATGA
96917789 TAATAATA-ATATTAATAG
1 TAATAATACA-ATTAATAG
96917807 TAATAATACAATTAATA
1 TAATAATACAATTAATA
96917824 AATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
TAATAATACAATTAATAG
Found at i:96917962 original size:3 final size:3
Alignment explanation
Indices: 96917954--96918039 Score: 50
Period size: 3 Copynumber: 28.0 Consensus size: 3
96917944 TGGGTAAAAT
* * *
96917954 ATA ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATA ATGA GGTA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA AT-A
* * * * *
96918001 ATA ATA ATG GTA ATA GTA ATA CTA CT- ATA AGTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
96918040 TAAATGGATA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
2 3 0.05
3 53 0.82
4 8 0.12
5 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:96918021 original size:18 final size:19
Alignment explanation
Indices: 96917955--96918021 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 19
96917945 GGGTAAAATA
* **
96917955 TAATAATAATAATAATATAA
1 TAATAGTAATAATAATA-GG
*
96917975 TAGTAGTAATAATAATGAGG
1 TAATAGTAATAATAAT-AGG
96917995 TAATA--AATAATAAT-GG
1 TAATAGTAATAATAATAGG
96918011 TAATAGTAATA
1 TAATAGTAATA
96918022 CTACTATAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 7 0.18
18 13 0.33
20 18 0.46
21 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (19 bp):
TAATAGTAATAATAATAGG
Found at i:96925907 original size:20 final size:20
Alignment explanation
Indices: 96925870--96925907 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
96925860 ATATTTTTTG
* *
96925870 AAAAATTAAGTAATATTTAA
1 AAAAATTAAATAAAATTTAA
96925890 AAAAATTAAATAAAATTT
1 AAAAATTAAATAAAATTT
96925908 GAAATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAATTAAATAAAATTTAA
Found at i:96926128 original size:17 final size:18
Alignment explanation
Indices: 96926095--96926128 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96926085 TATCTCTTAA
96926095 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
96926113 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
96926129 AAAATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:96926484 original size:6 final size:6
Alignment explanation
Indices: 96926473--96926500 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
96926463 TTTATGTAAG
96926473 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
96926501 ATTTCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:96927464 original size:20 final size:21
Alignment explanation
Indices: 96927436--96927474 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
96927426 AGTCCCATTT
*
96927436 TTTATTTTTTTTGTTTTAATA
1 TTTATTTTTTATGTTTTAATA
96927457 TTTA-TTTTTATGTTTTAA
1 TTTATTTTTTATGTTTTAA
96927475 ATGCATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTATTTTTTATGTTTTAATA
Found at i:96927482 original size:19 final size:20
Alignment explanation
Indices: 96927441--96927482 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
96927431 CATTTTTTAT
* **
96927441 TTTTTTTGTTTTAATATTTA
1 TTTTTATGTTTTAATATGCA
96927461 TTTTTATGTTTTAA-ATGCA
1 TTTTTATGTTTTAATATGCA
96927480 TTT
1 TTT
96927483 GATTTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTTATGTTTTAATATGCA
Found at i:96927751 original size:41 final size:40
Alignment explanation
Indices: 96927696--96927844 Score: 185
Period size: 41 Copynumber: 3.7 Consensus size: 40
96927686 CTAAATGCCG
*
96927696 CTATTG-TT-ACCTTTTGTGGCGTTTTTCTCATAAACGCTA
1 CTATTGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGC-A
*
96927735 CTATTGCTTGACCTTTTGCGACGTTTTTCTCATAAACGCCA
1 CTATTGCTTGACCTTTTGCGGCGTTTTTCTCATAAACG-CA
*
96927776 CTATTACTTGACCTTTTGCGGCGTTTTTCTCATAAACGCA
1 CTATTGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCA
* * * *
96927816 GCTATAGCTCTAACCTTTTGTGGCATTTT
1 -CTATTGCT-TGACCTTTTGCGGCGTTTT
96927845 CTGATTAACA
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
39 6 0.06
40 4 0.04
41 69 0.72
42 17 0.18
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (40 bp):
CTATTGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCA
Found at i:96927845 original size:82 final size:82
Alignment explanation
Indices: 96927704--96927860 Score: 201
Period size: 82 Copynumber: 1.9 Consensus size: 82
96927694 CGCTATTGTT
* * * *
96927704 ACCTTTTGTGGCGTTTTTCTCATAAACGCTACTATTGCTTGACCTTTTGCGACGTTTTTCTCATA
1 ACCTTTTGCGGCGTTTTTCTCATAAACGCTACTATAGCTTAACCTTTTGCGACGATTTTCTCATA
*
96927769 AACGCCACTATTACTTG
66 AACACCACTATTACTTG
* * *
96927786 ACCTTTTGCGGCGTTTTTCTCATAAACGC-AGCTATAGCTCTAACCTTTTGTGGC-ATTTTCTGA
1 ACCTTTTGCGGCGTTTTTCTCATAAACGCTA-CTATAGCT-TAACCTTTTGCGACGATTTTCTCA
*
96927849 TTAACACCACTA
64 TAAACACCACTA
96927861 GTATATAACT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 1 0.02
82 52 0.81
83 11 0.17
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (82 bp):
ACCTTTTGCGGCGTTTTTCTCATAAACGCTACTATAGCTTAACCTTTTGCGACGATTTTCTCATA
AACACCACTATTACTTG
Found at i:96932005 original size:43 final size:43
Alignment explanation
Indices: 96931935--96932017 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
96931925 ATATTCTAGA
* * *
96931935 AAGGAAAGAAATCAACTAAAGTGAAATCGCAATAGAGAAACCT
1 AAGGAAAGAAATCAACTAAAATAAAATCACAATAGAGAAACCT
* *
96931978 AAGGAAAGAAATCAATTAAAATAAAATCACAATCGAGAAA
1 AAGGAAAGAAATCAACTAAAATAAAATCACAATAGAGAAA
96932018 TCTACTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (43 bp):
AAGGAAAGAAATCAACTAAAATAAAATCACAATAGAGAAACCT
Found at i:96934095 original size:21 final size:19
Alignment explanation
Indices: 96934067--96934105 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
96934057 GAGCTCGACT
*
96934067 AAAATAAGATCTTAATCAAG
1 AAAATAAG-CCTTAATCAAG
96934087 AAAACTAAGCCTTAATCAA
1 AAAA-TAAGCCTTAATCAA
96934106 AATTAGTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAATAAGCCTTAATCAAG
Found at i:96937890 original size:79 final size:79
Alignment explanation
Indices: 96937669--96937923 Score: 359
Period size: 79 Copynumber: 3.2 Consensus size: 79
96937659 GGCTCTCACG
* * *
96937669 ACTTCTTGCACAAGGTTTAAAGTTGGTAGGTTGCCAATGAGGTACATTGGTGCTCCTTTTGTTTC
1 ACTTCTTGCACAAGGTTTAAAGTTGGTAGGCTACCAATGAGGTACATTGGTGCTCCTCTTGTTTC
* *
96937734 TCGGAAGCTTTCTC
66 TTGGAAGCTGTCTC
* *
96937748 ACTTCTTGCACAAGGTTT-AAGTTGGTAGGCTACCAATGAGGTACCTTGGTGCACCTCTTGTTTC
1 ACTTCTTGCACAAGGTTTAAAGTTGGTAGGCTACCAATGAGGTACATTGGTGCTCCTCTTGTTTC
96937812 TTGGAAGCTGTCTC
66 TTGGAAGCTGTCTC
* * * * * * *
96937826 ACTTCTTGCATAAGGTTTAAAGTCGGTAGGCTACTAGTGAGGGACTTTGGTGTTCCTCTTGTTTC
1 ACTTCTTGCACAAGGTTTAAAGTTGGTAGGCTACCAATGAGGTACATTGGTGCTCCTCTTGTTTC
96937891 TTGGAAGCTGTCTC
66 TTGGAAGCTGTCTC
**
96937905 ACTTCTTGCATGAGGTTTA
1 ACTTCTTGCACAAGGTTTA
96937924 GTTCCTCTTG
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
78 70 0.44
79 89 0.56
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (79 bp):
ACTTCTTGCACAAGGTTTAAAGTTGGTAGGCTACCAATGAGGTACATTGGTGCTCCTCTTGTTTC
TTGGAAGCTGTCTC
Found at i:96940590 original size:21 final size:21
Alignment explanation
Indices: 96940565--96940629 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 21
96940555 TAGCCTTCGG
96940565 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
**
96940586 GCTT-CAATTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
**
96940604 GCTTCCGTTTAGCACTCATGT
1 GCTTCCGTTTAGCACTTGTGT
96940625 GCTTC
1 GCTTC
96940630 AGCTAGACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
18 4 0.12
19 10 0.30
20 10 0.30
21 9 0.27
ACGTcount: A:0.12, C:0.28, G:0.22, T:0.38
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:96940646 original size:39 final size:39
Alignment explanation
Indices: 96940547--96940647 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
96940537 GCTCTGATGA
**
96940547 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTCATGT
*
96940586 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTCATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTCATGT
* * *
96940625 GCTTCAGCTAGACTTCAGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
96940648 AGATCACGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.14, C:0.28, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTCATGT
Found at i:96943009 original size:46 final size:45
Alignment explanation
Indices: 96942959--96943134 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
96942949 TGGTTGAGCA
96942959 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
96943005 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
96943052 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
96943098 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96943135 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 64 0.59
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:96943115 original size:93 final size:93
Alignment explanation
Indices: 96942956--96943126 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
96942946 GGATGGTTGA
* *
96942956 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
96943021 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
96943049 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
96943113 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
96943127 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:96953709 original size:3 final size:3
Alignment explanation
Indices: 96953701--96953845 Score: 61
Period size: 3 Copynumber: 47.0 Consensus size: 3
96953691 CTTTATTAAA
* * * *
96953701 TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT TAC TAT TGT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
96953746 TAT TAT TAT TAGT GTA- TAT TTT TAT TAT ATAT GTA- TAT ATATT TAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT -TAT -TAT TAT -TA-T TAT
* * * *
96953792 ATAT T-T ATAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT
1 -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
96953838 TA- TAT TAT
1 TAT TAT TAT
96953846 ATTTGCTTTT
Statistics
Matches: 107, Mismatches: 19, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
2 11 0.10
3 74 0.69
4 19 0.18
5 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:96953722 original size:9 final size:9
Alignment explanation
Indices: 96953693--96953753 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
96953683 TTTCATTTCT
96953693 TTATTAAATA
1 TTATT-AATA
*
96953703 TTATTATTA
1 TTATTAATA
96953712 TT-TCTAATA
1 TTAT-TAATA
96953721 TTATTAATA
1 TTATTAATA
*
96953730 TTATTACTA
1 TTATTAATA
* *
96953739 TTGTTATTA
1 TTATTAATA
96953748 TTATTA
1 TTATTA
96953754 TTAGTGTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
8 1 0.02
9 36 0.84
10 6 0.14
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTATTAATA
Found at i:96953722 original size:18 final size:18
Alignment explanation
Indices: 96953693--96953753 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
96953683 TTTCATTTCT
96953693 TTATTAAATATTATTATTA
1 TTATT-AATATTATTATTA
*
96953712 TT-TCTAATATTATTAATA
1 TTAT-TAATATTATTATTA
* *
96953730 TTATTACTATTGTTATTA
1 TTATTAATATTATTATTA
96953748 TTATTA
1 TTATTA
96953754 TTAGTGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 32 0.89
19 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (18 bp):
TTATTAATATTATTATTA
Found at i:96953770 original size:19 final size:18
Alignment explanation
Indices: 96953728--96953812 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
96953718 ATATTATTAA
*
96953728 TATTATTACTATTGT-TAT
1 TATTATTATTA-TGTATAT
96953746 TATTATTATTAGTGTATAT
1 TATTATTATTA-TGTATAT
*
96953765 TTTTATTATATATGTATAT
1 TATTATTAT-TATGTATAT
* *
96953784 ATATTTATATATTTATATATAG
1 -TA-TTAT-TA-TTATGTATAT
96953806 TATTATT
1 TATTATT
96953813 TTTAATTACT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 13 0.24
19 19 0.35
20 7 0.13
21 6 0.11
22 9 0.16
23 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (18 bp):
TATTATTATTATGTATAT
Found at i:96954035 original size:24 final size:22
Alignment explanation
Indices: 96954008--96954065 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
96953998 CATTATTTTT
*
96954008 TATTATTATTTTCTTTATTGTGAA
1 TATTATTATTTT-TTTATTCT-AA
*
96954032 TATTATTGTTATTTTTATTCTAA
1 TATTATTATT-TTTTTATTCTAA
96954055 TATTA-TATTTT
1 TATTATTATTTT
96954066 AATATTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 7 0.23
24 16 0.53
25 2 0.07
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (22 bp):
TATTATTATTTTTTTATTCTAA
Found at i:96966044 original size:154 final size:152
Alignment explanation
Indices: 96965858--96966301 Score: 678
Period size: 154 Copynumber: 2.9 Consensus size: 152
96965848 GGTATTCTGA
*
96965858 TATTTTTA-TTTCTATTTTT-AAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
1 TATTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
* *
96965921 CACGCACTGAGGTATTTTCAATTTATGTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 CACACACTGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
96965986 AGCCTCGGGTCACACGCTGAGG
131 AGCCTCGGGTCACACGCTGAGG
* *
96966008 TATTTTTAGTTCCTATTTTTCAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAG
1 TATTTTTAGTTTCTATTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
96966073 ATCACACACTAAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
64 ATCACACACTGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
96966138 TGAGCCTCGGGTCACACGCTGAGG
129 TGAGCCTCGGGTCACACGCTGAGG
* * *
96966162 TATTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGACTCCGGA
1 TATTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGA
* * *
96966227 -CACACGCTGAGGTATTTTCAATTTATGTTTTTTCAAAAAAAAATCTACTCATATTGCGAGAAGT
65 TCACACACTGAGGTATTTTCAATTTATG---TTTC--AAAAAAATCAACTCATATTGCGAGAGGT
*
96966291 GAGTTAAGCCT
125 GAGTTGAGCCT
96966302 TTTAGTTTCT
Statistics
Matches: 268, Mismatches: 16, Indels: 13
0.90 0.05 0.04
Matches are distributed among these distances:
150 8 0.03
151 10 0.04
152 61 0.23
153 3 0.01
154 146 0.54
155 4 0.01
157 36 0.13
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (152 bp):
TATTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
CACACACTGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCGGGTCACACGCTGAGG
Found at i:96966183 original size:77 final size:76
Alignment explanation
Indices: 96965858--96966301 Score: 543
Period size: 75 Copynumber: 5.8 Consensus size: 76
96965848 GGTATTCTGA
* * *
96965858 TATTTTTATTTCTATTTTT-AAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
1 TATTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
* *
96965922 ACGCACTGAGG
66 ACACGCTGAGG
* * * *
96965933 TATTTTCAATT-TATGTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
96965997 ACACGCTGAGG
66 ACACGCTGAGG
* * *
96966008 TATTTTTAGTTCCTATTTTTCAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAG
1 TATTTTCA-TTTCTATTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * *
96966073 ATCACACACTAAGG
63 GTCACACGCTGAGG
* * *
96966087 TATTTTCAATT-TATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
96966151 ACACGCTGAGG
66 ACACGCTGAGG
* * * * *
96966162 TATTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGACTCCGGA
1 TATTTTCA-TTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
96966227 CACACGCTGAGG
65 CACACGCTGAGG
* * * * *
96966239 TATTTTCAATTTATGTTTTTTCAAAAAAAAATCTACTCATATTGCGAGAAGTGAGTTAAGCCT
1 TATTTTC-ATTTCT-ATTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
96966302 TTTAGTTTCT
Statistics
Matches: 315, Mismatches: 43, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
74 6 0.02
75 124 0.39
76 3 0.01
77 83 0.26
78 8 0.03
79 57 0.18
80 34 0.11
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (76 bp):
TATTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
ACACGCTGAGG
Found at i:96968095 original size:3 final size:3
Alignment explanation
Indices: 96968087--96968227 Score: 75
Period size: 3 Copynumber: 47.0 Consensus size: 3
96968077 CTTTATTAAA
* * *
96968087 TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
96968132 TAT TAT TGT ATAT T-T TAT TAT ATAT GTA- TAT ATATT TAT ATAT T-T
1 TAT TAT TAT -TAT TAT TAT TAT -TAT -TAT TAT -TA-T TAT -TAT TAT
* * *
96968177 ATAT ATAG TAT TAT T-T T-T TAT TAC T-T TAT T-T TAA TAT TAT TAT
1 -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96968220 TA- TAT TAT
1 TAT TAT TAT
96968228 ATTTGCTTTT
Statistics
Matches: 108, Mismatches: 15, Indels: 30
0.71 0.10 0.20
Matches are distributed among these distances:
2 15 0.14
3 74 0.69
4 18 0.17
5 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Done.