Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001179.1 Hibiscus syriacus cultivar Beakdansim tig00002345_pilon, whole genome shotgun sequence
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: 278765
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:4016 original size:74 final size:75
Alignment explanation
Indices: 3926--4137 Score: 214
Period size: 75 Copynumber: 2.8 Consensus size: 75
3916 CAATATAAAT
* ** * * **
3926 TTTGTCTCGCTTGAGACAGTTTCA-TTTAATACAAAAGATTT-ATCTCATTGGAGATTGTTTTTC
1 TTTGTCTCACTTGAGACAGTTTCACTCGAA-ACAAAACATTTCATCTCACTCAAGATTGTTTTTC
3989 TTAAAAC-AGA
65 TTAAAACAAGA
* * * * * *
3999 CTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGACATTTCATTTGACTCAAGATTGTTTTTC
1 -TTTGTCTCACTTGAGACAGTTTCACTCGAAACAAAACATTTCATCTCACTCAAGATTGTTTTTC
4064 TTAAAACAAGA
65 TTAAAACAAGA
* * * * *
4075 TTTGTCTCTCTTGAGACAGTTTTTACTCGAAAGAATACATTTCATTTCACTCAAGATTGTTTT
1 TTTGTCTCACTTGAGACAG-TTTCACTCGAAACAAAACATTTCATCTCACTCAAGATTGTTTT
4138 AAAGAATATT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
74 29 0.25
75 44 0.38
76 44 0.38
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (75 bp):
TTTGTCTCACTTGAGACAGTTTCACTCGAAACAAAACATTTCATCTCACTCAAGATTGTTTTTCT
TAAAACAAGA
Found at i:4021 original size:36 final size:36
Alignment explanation
Indices: 3968--4098 Score: 88
Period size: 36 Copynumber: 3.6 Consensus size: 36
3958 AAAAGATTTA
*
3968 TCTCA-TTGGAGATTGTTTTTCTTAAAACAGACTTTG
1 TCTCACTT-GAGACTGTTTTTCTTAAAACAGACTTTG
* * *
4004 TCTCACTTGAGACTGTTTTACTCGAAAGA-AGACATTTCA
1 TCTCACTTGAGACTGTTTTTCT-TAAA-ACAGAC-TTT-G
* * ** *
4043 TTTGACTCAAGATTGTTTTTCTTAAAACAAGA-TTTG
1 TCTCACTTGAGACTGTTTTTCTTAAAAC-AGACTTTG
* *
4079 TCTCTCTTGAGACAGTTTTT
1 TCTCACTTGAGACTGTTTTT
4099 ACTCGAAAGA
Statistics
Matches: 69, Mismatches: 19, Indels: 14
0.68 0.19 0.14
Matches are distributed among these distances:
36 30 0.43
37 13 0.19
38 7 0.10
39 19 0.28
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (36 bp):
TCTCACTTGAGACTGTTTTTCTTAAAACAGACTTTG
Found at i:4067 original size:75 final size:76
Alignment explanation
Indices: 3977--4137 Score: 263
Period size: 76 Copynumber: 2.1 Consensus size: 76
3967 ATCTCATTGG
*
3977 AGATTGTTTTTCTTAAAAC-AGACTTTGTCTCACTTGAGACTG-TTTTACTCGAAAGAAGACATT
1 AGATTGTTTTTCTTAAAACAAGA-TTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATT
*
4040 TCATTTGACTCA
65 TCATTTCACTCA
* *
4052 AGATTGTTTTTCTTAAAACAAGATTTGTCTCTCTTGAGACAGTTTTTACTCGAAAGAATACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATTT
4117 CATTTCACTCA
66 CATTTCACTCA
4128 AGATTGTTTT
1 AGATTGTTTT
4138 AAAGAATATT
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
75 36 0.45
76 44 0.55
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATTT
CATTTCACTCA
Found at i:4198 original size:39 final size:40
Alignment explanation
Indices: 4142--4258 Score: 146
Period size: 39 Copynumber: 3.0 Consensus size: 40
4132 TGTTTTAAAG
* *
4142 AATATTGTATCTTGCTTGAGATAGTTTCCCTTGAAACA-A
1 AATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACATA
* *
4181 AATATTTTATCTCGCTTGAGATAGTTTCCCTGGAAACATG
1 AATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACATA
* * * **
4221 AAGATTTTGTCTCTCTTGAGGCAGTTTCCCTTGAAACA
1 AATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACA
4259 CCAATCTTTG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 35 0.52
40 32 0.48
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (40 bp):
AATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACATA
Found at i:4312 original size:66 final size:68
Alignment explanation
Indices: 4196--4323 Score: 188
Period size: 66 Copynumber: 1.9 Consensus size: 68
4186 TTTATCTCGC
* *
4196 TTGAGATAGTTTCCCTGGAAACATGAAGATTTTGTCTCTCTTGAGGCAGTTTCCCTTGAAACACC
1 TTGAGATAGTTTCCCTGGAAACA--AAGATTTTGTCTCACTTGAGACAGTTTCCCTTGAAACACC
4261 AATCT
64 AATCT
* *
4266 TTGAGATTGTTTCCCTTGAAAC-AA-ATTTTGTCTCACTTGAGACAGTTTCCCTTGAAAC
1 TTGAGATAGTTTCCCTGGAAACAAAGATTTTGTCTCACTTGAGACAGTTTCCCTTGAAAC
4324 GAGTTTTGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
66 32 0.59
67 2 0.04
70 20 0.37
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (68 bp):
TTGAGATAGTTTCCCTGGAAACAAAGATTTTGTCTCACTTGAGACAGTTTCCCTTGAAACACCAA
TCT
Found at i:4314 original size:36 final size:36
Alignment explanation
Indices: 4156--4502 Score: 309
Period size: 36 Copynumber: 9.7 Consensus size: 36
4146 TTGTATCTTG
* * *
4156 CTTGAGATAGTTTCCCTTGAAACAAAATATTTTATCTCG
1 CTTGAGACAGTTTCCCTTGAAAC--AA-ATTTTGTCTCT
* *
4195 CTTGAGATAGTTTCCCTGGAAACATGAAGATTTTGTCTCT
1 CTTGAGACAGTTTCCCTTGAAAC---AA-ATTTTGTCTCT
*
4235 CTTGAGGCAGTTTCCCTTGAAACACCAA-------TCT
1 CTTGAGACAGTTTCCCTTGAAACA--AATTTTGTCTCT
** *
4266 -TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCA
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* *
4301 CTTGAGACAGTTTCCCTTGAAACGAGTTTTGTCTCT
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* * * *
4337 CTTGAGACAGCTTCTCTTGAAACGAGTTTTGTCTCT
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* * *
4373 CTTGAGACAGCTTCTCTTGAAACAAGTTTTGTCTCT
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* *
4409 CTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTAT
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
* *** *
4445 CTTGAGACAATTTCCCTTG-AA-TTTTTTTGTCTCG
1 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
*
4479 CTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTTGAAACA
4503 CAAAATCTTT
Statistics
Matches: 262, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
28 2 0.01
30 20 0.08
31 3 0.01
34 25 0.10
35 6 0.02
36 150 0.57
37 1 0.00
38 1 0.00
39 23 0.09
40 31 0.12
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (36 bp):
CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCT
Found at i:4374 original size:21 final size:20
Alignment explanation
Indices: 4280--4449 Score: 74
Period size: 21 Copynumber: 9.2 Consensus size: 20
4270 GATTGTTTCC
* *
4280 CTTGAAACAAATTTTGTCTCA
1 CTTGAAAC-AGTTTTGTCTCT
*
4301 CTTGAGACAG--TT-TC-C-
1 CTTGAAACAGTTTTGTCTCT
4316 CTTGAAACGAGTTTTGTCTCT
1 CTTGAAAC-AGTTTTGTCTCT
* *
4337 CTTGAGACAG----CT-TCT
1 CTTGAAACAGTTTTGTCTCT
4352 CTTGAAACGAGTTTTGTCTCT
1 CTTGAAAC-AGTTTTGTCTCT
* *
4373 CTTGAGACAG----CT-TCT
1 CTTGAAACAGTTTTGTCTCT
4388 CTTGAAACAAGTTTTGTCTCT
1 CTTGAAAC-AGTTTTGTCTCT
*
4409 CTTGAGACAG--TT-TC-C-
1 CTTGAAACAGTTTTGTCTCT
*
4424 CTTGAAACAAGTTTTGTCTAT
1 CTTGAAAC-AGTTTTGTCTCT
4445 CTTGA
1 CTTGA
4450 GACAATTTCC
Statistics
Matches: 111, Mismatches: 14, Indels: 48
0.64 0.08 0.28
Matches are distributed among these distances:
15 34 0.31
16 12 0.11
17 4 0.04
18 8 0.07
19 4 0.04
20 10 0.09
21 39 0.35
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (20 bp):
CTTGAAACAGTTTTGTCTCT
Found at i:4619 original size:66 final size:67
Alignment explanation
Indices: 4469--4640 Score: 217
Period size: 66 Copynumber: 2.6 Consensus size: 67
4459 CCTTGAATTT
4469 TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAATATGTTTCTCTTGAAAAG
1 TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAATATGTTTCTCTTGAAAAG
4534 AA
66 AA
* * ** *
4536 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAC-CGATCTTTGAGAT-CGTTT-TCCTTGAAC
1 TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGA-ATATGTTTCT-CTTGAA-
*
4598 TA-AA
63 AAGAA
* *
4602 TTTTGTCTCGATGGAGACAGTTTCTCTTGAAACACAAAA
1 TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACACAAAA
4641 ACTTGGATTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
65 1 0.01
66 51 0.57
67 37 0.42
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (67 bp):
TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACACAAAATCTTTGAATATGTTTCTCTTGAAAAG
AA
Found at i:5408 original size:91 final size:91
Alignment explanation
Indices: 5043--5415 Score: 509
Period size: 91 Copynumber: 4.1 Consensus size: 91
5033 CCAATCAACA
* * *
5043 TTCCAGCGGAGAGTTCA-AATGAGAAGAACTCGTCCAAGGAGGGAGAAGAAGTTCATAATGAGAA
1 TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
* *
5107 GAACTTGTTCAACCTTATCTCAGCAT
66 GAACTTGTTCAACCTTAGCTCATCAT
*
5133 TTCCTGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
1 TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
* *
5198 TAACATGTTCAACCTTTA-CTCAGT-AT
66 GAACTTGTTCAACC-TTAGCTCA-TCAT
* * * *
5224 TTCCACTTGAGAGTTCATAATGAGAATAACTCATCCAACGAGGGAGAATAAGTTCATAATGAGAA
1 TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
* * * **
5289 GAACTTATTCAACCTTGGTTCAAGAT
66 GAACTTGTTCAACCTTAGCTCATCAT
* * *
5315 TTCCAGTGGAGAGTTCATAATGAGAAAAACTCATCCAACGAGGGAGAAGAATTTCATATTGAGAA
1 TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
* *
5380 GAACTTCTTCAACCTTAGATCATCAT
66 GAACTTGTTCAACCTTAGCTCATCAT
5406 TTCCAGTGGA
1 TTCCAGTGGA
5416 AAAACTAGGA
Statistics
Matches: 249, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
90 17 0.07
91 229 0.92
92 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (91 bp):
TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAA
GAACTTGTTCAACCTTAGCTCATCAT
Found at i:8413 original size:27 final size:27
Alignment explanation
Indices: 8383--8457 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
8373 AATAGTAAGT
*
8383 AAAAAAAAACAATAATAAAAATATATA
1 AAAAAAAAACAATAATAAAAATAAATA
*
8410 AAAAGAAAAAGAA-AA-AGAAAATAAATA
1 AAAA-AAAAACAATAATA-AAAATAAATA
8437 AAACAAATAAACAAATAATAA
1 AAA-AAA-AAAC-AATAATAA
8458 TAACAAAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 11 0.29
29 2 0.05
30 3 0.08
31 1 0.03
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (27 bp):
AAAAAAAAACAATAATAAAAATAAATA
Found at i:8807 original size:2 final size:2
Alignment explanation
Indices: 8754--8788 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8744 CTTGTGTAGA
8754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8789 ATAGTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8870 original size:36 final size:38
Alignment explanation
Indices: 8830--8905 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 38
8820 TCAATAAAAA
*
8830 AGAAAATAAATA-TAATATAATG-ATAA-TAAAAAATAT
1 AGAAAATAAATAGAAATAT-ATGTATAATTAAAAAATAT
* *
8866 AGAAAATTAATAGAAATATATGTATAATTTAAAAATAT
1 AGAAAATAAATAGAAATATATGTATAATTAAAAAATAT
8904 AG
1 AG
8906 CACTTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 14 0.41
37 9 0.26
38 11 0.32
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (38 bp):
AGAAAATAAATAGAAATATATGTATAATTAAAAAATAT
Found at i:9162 original size:21 final size:21
Alignment explanation
Indices: 9115--9155 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
9105 TAAAAGGAAA
*
9115 ATAATAGTAAATAATAATAAT
1 ATAATAGTAAATAATAAAAAT
9136 ATAATAGT-AATAATAAAAAT
1 ATAATAGTAAATAATAAAAAT
9156 GCAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAATAGTAAATAATAAAAAT
Found at i:9774 original size:35 final size:36
Alignment explanation
Indices: 9692--9791 Score: 148
Period size: 35 Copynumber: 2.8 Consensus size: 36
9682 AGTGCTTGTG
* * *
9692 TATCCTATCTTTAGGAGTTTAAATCATAGTAGAATTC
1 TATCCTAT-TTTAGGAGTTTGAATCCTAGCAGAATTC
*
9729 TATCCTATTTTAGGAGTTTGAATCCTAGCA-AATTT
1 TATCCTATTTTAGGAGTTTGAATCCTAGCAGAATTC
9764 TATCCTATTTTAGGAGTTTGAATCCTAG
1 TATCCTATTTTAGGAGTTTGAATCCTAG
9792 TAGGACGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 32 0.54
36 19 0.32
37 8 0.14
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (36 bp):
TATCCTATTTTAGGAGTTTGAATCCTAGCAGAATTC
Found at i:18220 original size:15 final size:15
Alignment explanation
Indices: 18200--18242 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
18190 GGGTCCAGGT
18200 GGACTGATATTAGGC
1 GGACTGATATTAGGC
*
18215 GGACTGATATTAGGT
1 GGACTGATATTAGGC
18230 GGACTGATATTAG
1 GGACTGATATTAG
18243 ATGCCGGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (15 bp):
GGACTGATATTAGGC
Found at i:26277 original size:37 final size:32
Alignment explanation
Indices: 26195--26306 Score: 136
Period size: 32 Copynumber: 3.4 Consensus size: 32
26185 CTAAACTCGA
*
26195 ACCCAACCCGAATATCACACTTAAAAAACCCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCG
* * *
26227 ACCCGACCTGAATATTACACTTAAAAACCCCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCG
26259 ATCCGACTCGACCCGAATATCACACTTAAAAAA-CCG
1 A--C--C-CGACCCGAATATCACACTTAAAAAACCCG
26295 ACCCGACCCGAA
1 ACCCGACCCGAA
26307 CAAAATAAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
31 9 0.13
32 30 0.44
34 2 0.03
36 5 0.07
37 22 0.32
ACGTcount: A:0.39, C:0.37, G:0.10, T:0.14
Consensus pattern (32 bp):
ACCCGACCCGAATATCACACTTAAAAAACCCG
Found at i:36433 original size:2 final size:2
Alignment explanation
Indices: 36426--36450 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36416 TTCTTCTTTA
36426 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
36451 TATTCCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:45895 original size:30 final size:30
Alignment explanation
Indices: 45860--45916 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
45850 ACATGTTCGA
*
45860 TTTGTGTTTGTTTAAATTCTTAATATTGTG
1 TTTGTGTTCGTTTAAATTCTTAATATTGTG
*
45890 TTTGTGTTCGTTTAAATTTTTAATATT
1 TTTGTGTTCGTTTAAATTCTTAATATT
45917 TTATCTATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.04, G:0.14, T:0.61
Consensus pattern (30 bp):
TTTGTGTTCGTTTAAATTCTTAATATTGTG
Found at i:49546 original size:10 final size:10
Alignment explanation
Indices: 49508--49556 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
49498 TCATCACACA
49508 AAATTCTCTC
1 AAATTCTCTC
*
49518 AATTTCTCTC
1 AAATTCTCTC
*
49528 AACTTCTCTC
1 AAATTCTCTC
* *
49538 AAATACTCTT
1 AAATTCTCTC
*
49548 ATATTCTCT
1 AAATTCTCT
49557 GTTTAAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.45
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:49614 original size:17 final size:17
Alignment explanation
Indices: 49592--49641 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
49582 TTAATATTTT
*
49592 GTATTTAATTTATTTAA
1 GTATTTAATTTATATAA
49609 GTATTTAATTTATATAA
1 GTATTTAATTTATATAA
* *
49626 -TATTTTACTTATATAA
1 GTATTTAATTTATATAA
49642 TTTTTTTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (17 bp):
GTATTTAATTTATATAA
Found at i:55803 original size:36 final size:34
Alignment explanation
Indices: 55740--55816 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 34
55730 AAAAATAATC
* *
55740 TTAAACATATATTTTTTTATAATTATTTAGATTATT
1 TTAAAAATATATATTTTTATAATTATTTA-ATT-TT
55776 TTAAAAATATTATATTTTTATAA-TATTTAATTTT
1 TTAAAAATA-TATATTTTTATAATTATTTAATTTT
*
55810 ATAAAAA
1 TTAAAAA
55817 AAATATGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 8 0.22
35 3 0.08
36 14 0.38
37 12 0.32
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (34 bp):
TTAAAAATATATATTTTTATAATTATTTAATTTT
Found at i:55811 original size:15 final size:16
Alignment explanation
Indices: 55781--55813 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55771 TTATTTTAAA
*
55781 AATATTATATTTTTAT
1 AATATTATAATTTTAT
55797 AATATT-TAATTTTAT
1 AATATTATAATTTTAT
55812 AA
1 AA
55814 AAAAAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATATTATAATTTTAT
Found at i:55956 original size:17 final size:17
Alignment explanation
Indices: 55934--55971 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
55924 TATCAAATAA
*
55934 ATTTATCAA-ATTTATAT
1 ATTTAT-AATATTTAAAT
55951 ATTTATAATATTTAAAT
1 ATTTATAATATTTAAAT
55968 ATTT
1 ATTT
55972 TAGTAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTATAATATTTAAAT
Found at i:59717 original size:2 final size:2
Alignment explanation
Indices: 59712--59737 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59702 ATAGCTTTTA
59712 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59738 TTAATTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61949 original size:20 final size:20
Alignment explanation
Indices: 61919--62038 Score: 73
Period size: 20 Copynumber: 5.8 Consensus size: 20
61909 GTTTCCAGAT
*
61919 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* ** *
61939 TCGCATTGCGATT-TTCCAAA
1 TCGCAATGCGATTCTGAC-TA
* *
61959 TTCGCATTGCGATTTTCCGACTA
1 -TCGCAATGCGA--TTCTGACTA
* * *
61982 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
*
62002 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
*
62022 TCGCAACGCGATTCTGA
1 TCGCAATGCGATTCTGA
62039 TTGTCGCAAC
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
19 3 0.04
20 46 0.61
21 12 0.16
22 10 0.13
23 3 0.04
24 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Found at i:61991 original size:22 final size:22
Alignment explanation
Indices: 61934--61992 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
61924 ACGCGATTCT
61934 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* *
61956 AAAT-TCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
61977 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
61993 ATATGTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:62045 original size:20 final size:20
Alignment explanation
Indices: 61977--62048 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
61967 GCGATTTTCC
* *
61977 GACTATCGCAATGCGAATAT
1 GACTATCGCAACGCGATTAT
* *
61997 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAACGCGATTAT
*
62017 GACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGATTAT
* *
62037 GATTGTCGCAAC
1 GACTATCGCAAC
62049 ACTGAATTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (20 bp):
GACTATCGCAACGCGATTAT
Found at i:62890 original size:24 final size:24
Alignment explanation
Indices: 62863--62909 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
62853 AGTCAGTATT
*
62863 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTAATCTTGGTCAATACC
*
62887 CGAACTTTAATCTTGGTCAATAC
1 CGAAATTTAATCTTGGTCAATAC
62910 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (24 bp):
CGAAATTTAATCTTGGTCAATACC
Found at i:65523 original size:140 final size:140
Alignment explanation
Indices: 65266--65535 Score: 477
Period size: 140 Copynumber: 1.9 Consensus size: 140
65256 AAACGTTGTA
65266 TTATGTGTAAACTTTTAACATTTTCAGCTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGCTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* * *
65331 TGATTTGTTCAGTTATTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTATTATCACTTATTACACATTCATTTGAATATCGAAACGCAAATTTGACTAT
65396 TATGTGTATT
131 TATGTGTATT
* *
65406 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATTTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGCTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* *
65471 TGATATGTTTAGTTGTTATCACTTATTACACATTCATTTGAATATCGAAACGCAAATTTGACTAT
66 TGATATGTTCAGTTATTATCACTTATTACACATTCATTTGAATATCGAAACGCAAATTTGACTAT
65536 CGCAACACGA
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 123 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGCTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTATTATCACTTATTACACATTCATTTGAATATCGAAACGCAAATTTGACTAT
TATGTGTATT
Found at i:65531 original size:20 final size:20
Alignment explanation
Indices: 65506--65674 Score: 163
Period size: 20 Copynumber: 8.8 Consensus size: 20
65496 TTACACATTC
* * *
65506 ATTTGAATATCGAAACGCAA
1 ATTTGACTATCGCAACGCGA
*
65526 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
65546 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
65566 ATTTGTCTATCGCAACG-GCT
1 ATTTGACTATCGCAACGCG-A
*
65586 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
65606 A----A--ATTGCAACGTGA
1 ATTTGACTATCGCAACGCGA
*
65620 ATTTGAGTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
65640 ATTTGATTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
65660 ATTTGACTATCGCAA
1 ATTTGACTATCGCAA
65675 TGAGAAAATC
Statistics
Matches: 122, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
14 11 0.09
16 1 0.01
18 1 0.01
19 1 0.01
20 107 0.88
21 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:65624 original size:34 final size:34
Alignment explanation
Indices: 65586--65710 Score: 115
Period size: 34 Copynumber: 3.5 Consensus size: 34
65576 CGCAACGGCT
* *
65586 ATTTGACTATCGCAACGAGAAAATTGCAACGTGA
1 ATTTGACTATCGCAACGAGAAAATCGCAACGCGA
* * *
65620 ATTTGAGTATCGCAACGCGAATTTGATTATCACAACGCGA
1 ATTTGACTATCGCAACGAGAA----A--ATCGCAACGCGA
* * *
65660 ATTTGACTATCGCAATGAGAAAATCGCAAAGCGT
1 ATTTGACTATCGCAACGAGAAAATCGCAACGCGA
*
65694 ATTAGACTATCGCAACG
1 ATTTGACTATCGCAACG
65711 CGAATTGACT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
34 43 0.60
36 1 0.01
38 1 0.01
40 27 0.38
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (34 bp):
ATTTGACTATCGCAACGAGAAAATCGCAACGCGA
Found at i:65633 original size:74 final size:74
Alignment explanation
Indices: 65534--65716 Score: 228
Period size: 74 Copynumber: 2.5 Consensus size: 74
65524 AAATTTGACT
* * *
65534 ATCGCAACA-CGAATATGACTATCGCAACGCGAATTTG-TCTATCGCAACG-GCTATTTGACTAT
1 ATCGCAA-AGCGAATTTGACTATCGCAACGCGAATTTGAT-TATCACAACGCG-AATTTGACTAT
65596 CGCAACGAGAAA
63 CGCAACGAGAAA
* * * *
65608 ATTGCAACGTGAATTTGAGTATCGCAACGCGAATTTGATTATCACAACGCGAATTTGACTATCGC
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGATTATCACAACGCGAATTTGACTATCGC
*
65673 AATGAGAAA
66 AACGAGAAA
* *
65682 ATCGCAAAGCGTATTAGACTATCGCAACGCGAATT
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATT
65717 GACTTTCGCG
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
74 90 0.98
75 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (74 bp):
ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGATTATCACAACGCGAATTTGACTATCGC
AACGAGAAA
Found at i:65644 original size:54 final size:60
Alignment explanation
Indices: 65506--65674 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 60
65496 TTACACATTC
* *
65506 ATTTGAATATCGAAACGCAAATTTGACTATCGCAAC-ACGAATATGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGACGAATA-GACTATCGCAACGCGA
** * *
65566 ATTTGTCTATCGCAACG-GCTATTTGACTATCGCAACGA-GAA-A-A-T-T-GCAACGTGA
1 ATTTGAATATCGCAACGCG-AATTTGACTATCGCAACGACGAATAGACTATCGCAACGCGA
* * * *
65620 ATTTGAGTATCGCAACGCGAATTTGATTATCACAACG-CGAATTTGACTATCGCAA
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGACGAA-TAGACTATCGCAA
65675 TGAGAAAATC
Statistics
Matches: 87, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
54 41 0.47
55 2 0.02
56 1 0.01
57 2 0.02
58 1 0.01
59 2 0.02
60 37 0.43
61 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (60 bp):
ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGACGAATAGACTATCGCAACGCGA
Found at i:65770 original size:20 final size:20
Alignment explanation
Indices: 65715--65772 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
65705 GCAACGCGAA
* *
65715 TTGACTTTCGCGTTGTGATT
1 TTGACTTTAGCGTTGCGATT
* * *
65735 TTGTCTTTCGCATTGCGATT
1 TTGACTTTAGCGTTGCGATT
*
65755 TTGAGTTTAGCGTTGCGA
1 TTGACTTTAGCGTTGCGA
65773 AAGTGTACCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.47
Consensus pattern (20 bp):
TTGACTTTAGCGTTGCGATT
Found at i:67300 original size:20 final size:20
Alignment explanation
Indices: 67270--67332 Score: 83
Period size: 19 Copynumber: 3.1 Consensus size: 20
67260 GAATGTTGGG
*
67270 AGGGACCTCTTCAACGATGAC
1 AGGG-CCTCTTGAACGATGAC
*
67291 AGGGCCTCTTGAACGAT-AG
1 AGGGCCTCTTGAACGATGAC
*
67310 GGGGCCTCTTGAACGATGAC
1 AGGGCCTCTTGAACGATGAC
67330 AGG
1 AGG
67333 TGAGTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.47
20 15 0.42
21 4 0.11
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (20 bp):
AGGGCCTCTTGAACGATGAC
Found at i:67841 original size:18 final size:19
Alignment explanation
Indices: 67818--67863 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
67808 GAAACTTAAA
67818 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
67836 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
67856 ATCGCAAC
1 ATCGCAAC
67864 GAGAGAATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.40
20 15 0.60
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:68439 original size:21 final size:20
Alignment explanation
Indices: 68415--68489 Score: 57
Period size: 21 Copynumber: 3.8 Consensus size: 20
68405 GTGACAGAAT
68415 AGGTGATGGCTCTCGTTGTGG
1 AGGTGATGGCTCTCGTTGT-G
* ** *
68436 AGGTGTATAG-TCGGGTTGATC
1 AGGTG-ATGGCTCTCGTTG-TG
*
68457 AGGTGATGGCTCT-G-GGTG
1 AGGTGATGGCTCTCGTTGTG
68475 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
68490 AAGTGAAGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
18 14 0.33
19 2 0.05
20 4 0.10
21 18 0.43
22 4 0.10
ACGTcount: A:0.13, C:0.13, G:0.43, T:0.31
Consensus pattern (20 bp):
AGGTGATGGCTCTCGTTGTG
Found at i:69868 original size:20 final size:20
Alignment explanation
Indices: 69822--69862 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
69812 TCTGAAACTT
69822 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
69842 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
69862 A
1 A
69863 CTATCGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.20, G:0.15, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:70321 original size:22 final size:23
Alignment explanation
Indices: 70292--70344 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
70282 GGAGATAGAT
70292 GGATTTCGCT-GGAGATGGGGAC
1 GGATTTCGCTCGGAGATGGGGAC
*
70314 TGATTTCG-TCGGAGATGGGGAC
1 GGATTTCGCTCGGAGATGGGGAC
*
70336 GGATGTCGC
1 GGATTTCGC
70345 CTTAGAGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.17, C:0.15, G:0.43, T:0.25
Consensus pattern (23 bp):
GGATTTCGCTCGGAGATGGGGAC
Found at i:70538 original size:20 final size:20
Alignment explanation
Indices: 70508--70621 Score: 147
Period size: 20 Copynumber: 5.7 Consensus size: 20
70498 GCGCTTTGAA
*
70508 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
70528 CATCGCGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
70548 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
70568 AATCTCGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
70588 AATCGCATTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
* *
70608 ATTCGCATTGCGAT
1 AATCGCGTTGCGAT
70622 TTACATATTC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:70563 original size:40 final size:40
Alignment explanation
Indices: 70508--70620 Score: 172
Period size: 40 Copynumber: 2.8 Consensus size: 40
70498 GCGCTTTGAA
*
70508 AATCGCATTGCGATAGTCAGCATCGCGTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAG
* *
70548 AATCGCGTTGCGATAGTCAGAATCTCGTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAG
* * *
70588 AATCGCATTGCGATAGTCATATTCGCATTGCGA
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGA
70621 TTTACATATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
AATCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAG
Found at i:70628 original size:20 final size:20
Alignment explanation
Indices: 70510--70645 Score: 114
Period size: 20 Copynumber: 6.8 Consensus size: 20
70500 GCTTTGAAAA
*
70510 TCGCATTGCGATAGTCAGCA-
1 TCGCATTGCGATAGTCA-TAT
* * * *
70530 TCGCGTTGCGACAGTCAGAA
1 TCGCATTGCGATAGTCATAT
* * *
70550 TCGCGTTGCGATAGTCAGAA
1 TCGCATTGCGATAGTCATAT
* * * * *
70570 TCTCGTTGCGACAGTCAGAA
1 TCGCATTGCGATAGTCATAT
70590 TCGCATTGCGATAGTCATAT
1 TCGCATTGCGATAGTCATAT
*
70610 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGT-CATAT
70630 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
70646 GGAAAATCGC
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 97 0.97
21 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (20 bp):
TCGCATTGCGATAGTCATAT
Found at i:70639 original size:60 final size:60
Alignment explanation
Indices: 70508--70645 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
70498 GCGCTTTGAA
* * *
70508 AATCGCATTGCGATAGTCAGCATCGCGTTGCGACAGTCAGAATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGACAGTCAGAATCGCATTGCGATAGTCAG
* * * * * * * *
70568 AATCTCGTTGCGACAGTCAGAATCGCATTGCGATAGTCATATTCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGACAGTCAGAATCGCATTGCGATAGT-CAG
*
70628 ATTCGCATTGCGATAGTC
1 AATCGCATTGCGATAGTC
70646 GGAAAATCGC
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
59 1 0.02
60 61 0.98
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (60 bp):
AATCGCATTGCGATAGTCAGAATCGCATTGCGACAGTCAGAATCGCATTGCGATAGTCAG
Found at i:71197 original size:21 final size:21
Alignment explanation
Indices: 71157--71211 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
71147 GATTCTTGAC
71157 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
71177 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
71199 AATCGCAACGCGA
1 AATCGCAATGCGA
71212 ATATGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:71311 original size:20 final size:20
Alignment explanation
Indices: 71199--71427 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
71189 GATTTTACAG
* ** *
71199 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
71219 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
71239 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
71259 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
71279 AATCGCAACGCGTATCCATA
1 AATCGCAACGCGTATCCGTA
*
71299 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
71319 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
71339 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
71359 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
71379 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
71399 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
71419 AATCACAAC
1 AATCGCAAC
71428 TCTAAAATTT
Statistics
Matches: 176, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 172 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:72159 original size:24 final size:24
Alignment explanation
Indices: 72120--72166 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
72110 AAATTTGGTC
72120 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
72144 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
72167 GATTTTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:74687 original size:33 final size:33
Alignment explanation
Indices: 74636--74847 Score: 214
Period size: 33 Copynumber: 6.2 Consensus size: 33
74626 CGGAAATTAC
* *
74636 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
*
74669 AATCCCAACAAGAAAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
* * *
74702 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AA-GAAAATCGCAATGCGA-AAT-GAA
* *
74741 AAT-GCGGACATGAAAATCGCAATGCGAAATG-A
1 AATCGC-AACAAGAAAATCGCAATGCGAAATGAA
* *
74773 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
* *
74806 AATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGC-GAAATGAA
74840 AATCGCAA
1 AATCGCAA
74848 TGCGAAATGA
Statistics
Matches: 152, Mismatches: 16, Indels: 21
0.80 0.08 0.11
Matches are distributed among these distances:
32 25 0.16
33 68 0.45
34 30 0.20
35 2 0.01
37 3 0.02
38 16 0.11
39 7 0.05
40 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAACAAGAAAATCGCAATGCGAAATGAA
Found at i:74709 original size:52 final size:51
Alignment explanation
Indices: 74650--74871 Score: 275
Period size: 52 Copynumber: 4.3 Consensus size: 51
74640 GCAACGAGAG
*
74650 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-AAATCGCAACAAGAAAATCGCAATGCGAAATGAA
* * *
74702 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGACATGAA
1 AATCGCAATGCGAAATG-AAATCGCAACAAGAAAATCGCAATGC-GAAATGAA
* *
74755 AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCGCAACAAGAAAATCGCAATGCGAAATGAA
* * * * *
74806 AATCGCAACGAGAGAATCGCAATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGA-AAT-GAAAT-CGCAACAAGAAAATCGCAATGCGAAATGAA
*
74859 AATCGCATTGCGA
1 AATCGCAATGCGA
74872 TTCTCTCGTT
Statistics
Matches: 151, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
51 18 0.12
52 70 0.46
53 59 0.39
54 4 0.03
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAATCGCAACAAGAAAATCGCAATGCGAAATGAA
Found at i:74791 original size:85 final size:83
Alignment explanation
Indices: 74636--74865 Score: 327
Period size: 85 Copynumber: 2.7 Consensus size: 83
74626 CGGAAATTAC
* *** * * *
74636 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAACAAGAAAATCGCAATGCGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG-AAAT-GAAAT-CGCAACG
74700 AAAATCGCAATGCGAAATGAA
63 AAAATCGCAATGCGAAATGAA
*
74721 AATCGCAACGAGAGAATCGCAATGCGGACATGAAAATCGCAATGCGAAATGAAATCGCAACGAGA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGA-A
74786 GAATCGCAATGCGAAATGAA
65 -AATCGCAATGCGAAATGAA
74806 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATG-AAATCGCA
74866 TTGCGATTCT
Statistics
Matches: 132, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
83 6 0.05
84 5 0.04
85 98 0.74
86 23 0.17
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (83 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGAAA
ATCGCAATGCGAAATGAA
Found at i:74792 original size:14 final size:14
Alignment explanation
Indices: 74773--74827 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
74763 TGCGAAATGA
74773 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
74787 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
74806 AATCGCAACGAGAG
1 AATCGCAACGAGAG
74820 AATCGCAA
1 AATCGCAA
74828 TGCGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:74905 original size:53 final size:52
Alignment explanation
Indices: 74842--74957 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
74832 GAAATGAAAA
*
74842 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
74894 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
74947 TCGCATTGCGA
1 TCGCATTGCGA
74958 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:74920 original size:19 final size:19
Alignment explanation
Indices: 74880--74967 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
74870 GATTCTCTCG
74880 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
74900 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
74919 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
74933 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74952 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
74968 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:75077 original size:14 final size:14
Alignment explanation
Indices: 75058--75094 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
75048 CATCAATTAC
75058 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
75072 ACAAATCATCTTTT
1 ACAAATCAACTTTT
75086 ACAAATCAA
1 ACAAATCAA
75095 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:75712 original size:21 final size:21
Alignment explanation
Indices: 75658--75719 Score: 90
Period size: 20 Copynumber: 3.0 Consensus size: 21
75648 TCTTTTGGTT
75658 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
75679 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
75699 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
75720 TAATCGCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:75800 original size:21 final size:21
Alignment explanation
Indices: 75775--75848 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
75765 GTTGCGATTC
75775 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
75796 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
75817 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
75838 TCTCGTTGCGA
1 TCTCGTTGCGA
75849 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:75970 original size:33 final size:33
Alignment explanation
Indices: 75928--75998 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
75918 AATACTAACT
75928 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
75961 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
75994 TGAAA
1 TGAAA
75999 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:76398 original size:20 final size:20
Alignment explanation
Indices: 76373--76564 Score: 253
Period size: 20 Copynumber: 9.6 Consensus size: 20
76363 CTTTAAAAAT
76373 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
76393 CGCGTTGCGATTTACTGATTA
1 CGCGTTGCGATTTACGGA-TA
*
76414 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
76433 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
76453 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
76473 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
76493 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
76513 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
76533 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
76553 CGCGTTGCGATT
1 CGCGTTGCGATT
76565 CTTGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.01
20 147 0.97
21 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:77160 original size:60 final size:60
Alignment explanation
Indices: 77067--77179 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
77057 GCTCTTTAAC
* * * *
77067 TATAAGGTAGTGTTTTATTGAGTTATCCAACTATTAAAATTTATAAAATGATCATATGAT
1 TATAAGGTAGTGTTATATTGAGTCATCCAACTATTAAAAATTACAAAATGATCATATGAT
* *
77127 TATAAGGTAGTGTTATGTTGAGTC-CCTCAACTATTAAAAATTACAAAATGATC
1 TATAAGGTAGTGTTATATTGAGTCATC-CAACTATTAAAAATTACAAAATGATC
77180 TCTCAATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (60 bp):
TATAAGGTAGTGTTATATTGAGTCATCCAACTATTAAAAATTACAAAATGATCATATGAT
Found at i:82849 original size:13 final size:13
Alignment explanation
Indices: 82794--82859 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
82784 ATTATAAATA
*
82794 ATATATATTGTAT
1 ATATATATAGTAT
* *
82807 ACATTATATAGTTT
1 ATA-TATATAGTAT
*
82821 AT-TA-ATA-TAA
1 ATATATATAGTAT
*
82831 AT-TATATAGTTT
1 ATATATATAGTAT
82843 ATATATATAGTAT
1 ATATATATAGTAT
82856 ATAT
1 ATAT
82860 GGTTTAGGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
10 5 0.12
11 6 0.15
12 5 0.12
13 15 0.38
14 9 0.22
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (13 bp):
ATATATATAGTAT
Found at i:82856 original size:20 final size:19
Alignment explanation
Indices: 82811--82858 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 19
82801 TTGTATACAT
*
82811 TATATAGTTTATTAATATAAA
1 TATATAGTTTA-T-ATATATA
82832 TTATATAGTTTATATATATA
1 -TATATAGTTTATATATATA
82852 GTATATA
1 -TATATA
82859 TGGTTTAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.50
21 1 0.04
22 11 0.46
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
TATATAGTTTATATATATA
Found at i:82858 original size:22 final size:21
Alignment explanation
Indices: 82811--82971 Score: 80
Period size: 22 Copynumber: 7.3 Consensus size: 21
82801 TTGTATACAT
*
82811 TATATAGTTTAT-TAATATAAA
1 TATATAGTTTATAT-ATATATA
82832 TTATATAGTTTATATATATAGTA
1 -TATATAGTTTATATATATA-TA
* ** *
82855 TATATGGTTTAGGGTTTATAT-
1 TATATAGTTTA-TATATATATA
*
82876 TTTATA-TTTATATACTATATA
1 TATATAGTTTATATA-TATATA
*
82897 TACGAACTATAGTTTACATATGA-ACTA
1 T----A-TATAGTTTATATAT-ATA-TA
* *
82924 TATATAAATATATATATATATA
1 TATAT-AGTTTATATATATATA
*
82946 TATATA-TATATATATATATA
1 TATATAGTTTATATATATATA
82966 TATATA
1 TATATA
82972 TATATTAAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 32
0.70 0.10 0.21
Matches are distributed among these distances:
19 1 0.01
20 29 0.27
21 6 0.06
22 39 0.36
23 17 0.16
26 6 0.06
27 11 0.10
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (21 bp):
TATATAGTTTATATATATATA
Found at i:82929 original size:2 final size:2
Alignment explanation
Indices: 82922--82976 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
82912 ACATATGAAC
*
82922 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82964 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
82977 TAAGGTTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:83027 original size:42 final size:41
Alignment explanation
Indices: 82981--83100 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 41
82971 ATATATTAAG
*
82981 GTTTATATTTATATGAAATATAGTTTACATATAAACTATATA
1 GTTTATATTTATATGAACTATA-TTTACATATAAACTATATA
*
83023 GTTTATA--TA-CT-AACTATAATTTACATATAAAC--TATA
1 GTTTATATTTATATGAACTAT-ATTTACATATAAACTATATA
* *
83059 GTTAATATTTACATATGAACTAATATTTACATATGAACTATA
1 GTTTATATTT--ATATGAACT-ATATTTACATATAAACTATA
83101 GTTTACATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
36 10 0.16
38 19 0.30
39 2 0.03
40 3 0.05
41 1 0.02
42 24 0.38
43 2 0.03
44 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.42
Consensus pattern (41 bp):
GTTTATATTTATATGAACTATATTTACATATAAACTATATA
Found at i:83108 original size:60 final size:62
Alignment explanation
Indices: 83004--83118 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 62
82994 TGAAATATAG
*
83004 TTTACATATAAACTATATAGTTTATATACTAACTATAATTTACATATAAACTATAGTTAATA
1 TTTACATATAAACTATATAGTTTACATACTAACTATAATTTACATATAAACTATAGTTAATA
* * *
83066 TTTACATATGAACTA-ATA-TTTACATA-TGAACTATAGTTTACATATGAACTATA
1 TTTACATATAAACTATATAGTTTACATACT-AACTATAATTTACATATAAACTATA
83119 TATATAAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 1 0.02
60 30 0.62
61 3 0.06
62 14 0.29
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (62 bp):
TTTACATATAAACTATATAGTTTACATACTAACTATAATTTACATATAAACTATAGTTAATA
Found at i:83139 original size:33 final size:33
Alignment explanation
Indices: 83097--83224 Score: 127
Period size: 33 Copynumber: 3.8 Consensus size: 33
83087 ACATATGAAC
83097 TATAGTTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATGAACTATATATATAAACTA
* *
83130 TATAGTTTACATATGACCTATATATATAATAATA
1 TATAGTTTACATATGAACTATATATATAA-ACTA
* * * * *
83164 -ATAATAATA-ATAAT-AATTGATATTTATATACTA
1 TATAGT-TTACAT-ATGAACT-ATATATATAAACTA
*
83197 TATAGTTTACATATGACCTATATATATA
1 TATAGTTTACATATGAACTATATATATA
83225 CTATAGTTGA
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
33 51 0.69
34 23 0.31
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (33 bp):
TATAGTTTACATATGAACTATATATATAAACTA
Found at i:83150 original size:20 final size:20
Alignment explanation
Indices: 82998--83153 Score: 124
Period size: 18 Copynumber: 8.2 Consensus size: 20
82988 TTTATATGAA
*
82998 ATATAGTTTACATATAAACT
1 ATATAGTTTACATATGAACT
*
83018 ATATAGTTTATATACT-AACT
1 ATATAGTTTACATA-TGAACT
*
83038 ATA-A-TTTACATATAAACT
1 ATATAGTTTACATATGAACT
*
83056 ATAGTTAATATTTACATATGAACT
1 ATA--T-A-GTTTACATATGAACT
83080 A-ATA-TTTACATATGAAC-
1 ATATAGTTTACATATGAACT
83097 -TATAGTTTACATATGAACT
1 ATATAGTTTACATATGAACT
83116 ATATA---T--ATA--AACT
1 ATATAGTTTACATATGAACT
*
83129 ATATAGTTTACATATGACCT
1 ATATAGTTTACATATGAACT
83149 ATATA
1 ATATA
83154 TATAATAATA
Statistics
Matches: 113, Mismatches: 4, Indels: 38
0.73 0.03 0.25
Matches are distributed among these distances:
13 9 0.08
15 3 0.03
16 1 0.01
17 5 0.04
18 43 0.38
19 1 0.01
20 33 0.29
21 2 0.02
22 1 0.01
23 1 0.01
24 14 0.12
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (20 bp):
ATATAGTTTACATATGAACT
Found at i:83163 original size:3 final size:3
Alignment explanation
Indices: 83155--83180 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
83145 ACCTATATAT
83155 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
83181 TGATATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:83229 original size:9 final size:9
Alignment explanation
Indices: 83217--83281 Score: 53
Period size: 9 Copynumber: 6.8 Consensus size: 9
83207 ATATGACCTA
83217 TATATATAC
1 TATATATAC
83226 TATAGTTGATA-
1 TATA--T-ATAC
*
83237 TTTATATAC
1 TATATATAC
83246 TATATATTA-
1 TATATA-TAC
83255 TATATATAAAC
1 TATATAT--AC
83266 TATATATAC
1 TATATATAC
83275 TATATAT
1 TATATAT
83282 TATAATTTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
8 4 0.09
9 25 0.54
10 3 0.07
11 11 0.24
12 3 0.07
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (9 bp):
TATATATAC
Found at i:83257 original size:20 final size:20
Alignment explanation
Indices: 83215--83281 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
83205 ACATATGACC
83215 TATATATATACTATAGT-TGA
1 TATATATATACTATA-TATGA
* *
83235 TATTTATATACTATATATTA
1 TATATATATACTATATATGA
*
83255 TATATATAAACTATATAT-A
1 TATATATATACTATATATGA
83274 CTATATAT
1 -TATATAT
83282 TATAATTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.05
20 39 0.95
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (20 bp):
TATATATATACTATATATGA
Found at i:83379 original size:18 final size:18
Alignment explanation
Indices: 83353--83585 Score: 107
Period size: 18 Copynumber: 13.1 Consensus size: 18
83343 TATAATTTAT
83353 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * *
83371 TAATATATATAGACTATG
1 TAGTATATATAAACTATA
* *
83389 TGGTATATATAAAATATA
1 TAGTATATATAAACTATA
* * *
83407 CA-T-TATATATAGT-TCA
1 TAGTATATATAAACTAT-A
83423 GTAGTATATATAAACTATA
1 -TAGTATATATAAACTATA
**
83442 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
83457 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
83475 TAGTATATAGT--TC-AT-
1 TAGTATATA-TAAACTATA
*
83490 TAGTATATATAACCTATA
1 TAGTATATATAAACTATA
* *
83508 TAGTATATGGTAGATAC-AAA
1 TAGTATAT-ATA-A-ACTATA
* *
83528 CTA-TATATTATATAGT-TCA
1 -TAGTATA-TATAAACTAT-A
*
83547 TCAGTACATATAAACTATA
1 T-AGTATATATAAACTATA
*
83566 TAGTATATACAAACTATA
1 TAGTATATATAAACTATA
83584 TA
1 TA
83586 TTAATTTATT
Statistics
Matches: 157, Mismatches: 33, Indels: 50
0.65 0.14 0.21
Matches are distributed among these distances:
14 1 0.01
15 14 0.09
16 20 0.13
17 13 0.08
18 69 0.44
19 22 0.14
20 14 0.09
21 4 0.03
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:83465 original size:15 final size:15
Alignment explanation
Indices: 83445--83498 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
83435 AACTATATAT
83445 TATATAGTTCATTAG
1 TATATAGTTCATTAG
*
83460 TATATA-TAAACTATATAG
1 TATATAGT--TC-AT-TAG
83478 TATATAGTTCATTAG
1 TATATAGTTCATTAG
83493 TATATA
1 TATATA
83499 TAACCTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 15 0.47
16 3 0.09
17 3 0.09
18 9 0.28
19 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (15 bp):
TATATAGTTCATTAG
Found at i:83508 original size:33 final size:33
Alignment explanation
Indices: 83329--83574 Score: 215
Period size: 33 Copynumber: 7.5 Consensus size: 33
83319 CCCTAAACCC
* * * *
83329 TAAACTATACATTATATAATTTATTAGTATATA
1 TAAACTATATAGTATATAGTTCATTAGTATATA
* * *
83362 TAAACTATATAATATATA-TAGACTATGTGGTATATA
1 TAAACTATATAGTATATAGT--TC-AT-TAGTATATA
* *
83398 TAAAATATACATTA-TATATAGTTCAGTAGTATATA
1 TAAACTAT--A-TAGTATATAGTTCATTAGTATATA
*
83433 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATAGTATATAGTTCATTAGTATATA
83466 TAAACTATATAGTATATAGTTCATTAGTATATA
1 TAAACTATATAGTATATAGTTCATTAGTATATA
* *
83499 TAACCTATATAGTATAT-G-------GTAGATA
1 TAAACTATATAGTATATAGTTCATTAGTATATA
* * * *
83524 CAAACTATATATTATATAGTTCATCAGTACATA
1 TAAACTATATAGTATATAGTTCATTAGTATATA
83557 TAAACTATATAGTATATA
1 TAAACTATATAGTATATA
83575 CAAACTATAT
Statistics
Matches: 176, Mismatches: 20, Indels: 34
0.77 0.09 0.15
Matches are distributed among these distances:
25 20 0.11
26 1 0.01
32 4 0.02
33 107 0.61
35 17 0.10
36 16 0.09
37 1 0.01
38 7 0.04
39 3 0.02
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (33 bp):
TAAACTATATAGTATATAGTTCATTAGTATATA
Found at i:83512 original size:51 final size:51
Alignment explanation
Indices: 83457--83585 Score: 150
Period size: 58 Copynumber: 2.4 Consensus size: 51
83447 TATAGTTCAT
* * *
83457 TAGTATATATAAACTATATAGTATATAGTTCATTAGTATATATAACCTATA
1 TAGTATATATAAACTATATAGTATATAGTTCATCAGTACATATAAACTATA
*
83508 TAGTATATGGTAGATACAAACTATATATTATATAGTTCATCAGTACATATAAACTATA
1 TAGTATA---T--AT--AAACTATATAGTATATAGTTCATCAGTACATATAAACTATA
*
83566 TAGTATATACAAACTATATA
1 TAGTATATATAAACTATATA
83586 TTAATTTATT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
51 17 0.26
53 1 0.02
54 1 0.02
55 1 0.02
56 2 0.03
58 44 0.67
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (51 bp):
TAGTATATATAAACTATATAGTATATAGTTCATCAGTACATATAAACTATA
Found at i:83726 original size:61 final size:61
Alignment explanation
Indices: 83640--83761 Score: 183
Period size: 61 Copynumber: 2.0 Consensus size: 61
83630 AAATATATAA
* * *
83640 GGATCAAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAATTATAA-CATTAAATTT
1 GGATCAAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTA-AATCATTAAATTT
* *
83701 GGATTAAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATATATTAAATCATTAAATTT
1 GGATCAAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTAAATCATTAAATTT
83762 AGACTAGATT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 2 0.04
61 53 0.96
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (61 bp):
GGATCAAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTAAATCATTAAATTT
Found at i:85845 original size:20 final size:22
Alignment explanation
Indices: 85804--85848 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
85794 TCTAACTTTC
*
85804 ATTTATCTTTGTTATCTATTAT
1 ATTTATCTTTATTATCTATTAT
85826 ATTTAT-TTTATTAT-TATTAT
1 ATTTATCTTTATTATCTATTAT
85846 ATT
1 ATT
85849 AATATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTATCTTTATTATCTATTAT
Found at i:89905 original size:106 final size:106
Alignment explanation
Indices: 89720--90741 Score: 1666
Period size: 106 Copynumber: 9.6 Consensus size: 106
89710 AAAAGTTGTC
* * * **
89720 TGTCAACAGACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
89785 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
89826 TGTCAACAGACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
89891 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
89932 TGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
89997 AGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
90038 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
90103 AGACAACGCATGTTCAACTTCACGATGAAGCGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
90144 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCAGAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
90209 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
90250 TGTCAATAAATAACTTCCCAACTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
90315 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
90356 TGTCAAAAAAAAAACAACCTCCCAATTTCAGAGCCAATTTCAAACTTCCCAGCGAAGGATATTGG
1 TGTC----AACAAACAACTTCCCAATTTCAGAGCCAATTTC-AACTTCACAGCGAAGGATATTGG
90421 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
61 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
90467 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
90532 AGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
90573 TGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
90638 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * *
90679 TGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACT
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
90742 TAGAACAGTA
Statistics
Matches: 868, Mismatches: 43, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
106 739 0.85
107 30 0.03
110 29 0.03
111 70 0.08
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (106 bp):
TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:95557 original size:20 final size:19
Alignment explanation
Indices: 95532--95573 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
95522 TTTTATTTTA
95532 TAATTATATATTATTTAAAT
1 TAATTATA-ATTATTTAAAT
* *
95552 TAATTATAATTTTTTTAAT
1 TAATTATAATTATTTAAAT
95571 TAA
1 TAA
95574 AAAACATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATTATAATTATTTAAAT
Found at i:96561 original size:13 final size:13
Alignment explanation
Indices: 96542--96579 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
96532 TAATTTAGTG
96542 ATTATAAATAA-A
1 ATTATAAATAAGA
96554 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
96569 ATTATAAATAA
1 ATTATAAATAA
96580 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:96589 original size:19 final size:19
Alignment explanation
Indices: 96558--96604 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
96548 AATAAAATTT
96558 ATAATAT-AAGAATTAT-AA
1 ATAATATAAAGAATT-TGAA
96576 ATAATATAAAGAATTTGAA
1 ATAATATAAAGAATTTGAA
*
96595 TTAATATAAA
1 ATAATATAAA
96605 AATCAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (19 bp):
ATAATATAAAGAATTTGAA
Found at i:96601 original size:37 final size:36
Alignment explanation
Indices: 96559--96674 Score: 100
Period size: 37 Copynumber: 3.2 Consensus size: 36
96549 ATAAAATTTA
96559 TAATATAAGAATTATAAATAATATAAAGAATTTGAAT
1 TAATATAAGAATTATAAATAATATAAAGAA-TTGAAT
* * *
96596 TAATATAAAAATCA-AATTTATAATATACA-AATT--A-
1 TAATATAAGAATTATAA---ATAATATAAAGAATTGAAT
*
96630 TAATATAAGAATTATAAAAAAT-TAAAAGAATTGTAAT
1 TAATATAAGAATTATAAATAATAT-AAAGAATTG-AAT
96667 TAATATAA
1 TAATATAA
96675 AAACTAAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
31 1 0.02
32 6 0.10
33 4 0.06
34 12 0.19
35 3 0.05
36 3 0.05
37 22 0.35
38 2 0.03
39 9 0.15
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (36 bp):
TAATATAAGAATTATAAATAATATAAAGAATTGAAT
Found at i:96632 original size:14 final size:14
Alignment explanation
Indices: 96608--96646 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
96598 ATATAAAAAT
96608 CAAATTTATAATATA
1 CAAA-TTATAATATA
96623 CAAATTATAATATA
1 CAAATTATAATATA
96637 -AGAATTATAA
1 CA-AATTATAA
96647 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 18 0.78
15 4 0.17
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (14 bp):
CAAATTATAATATA
Found at i:96639 original size:71 final size:70
Alignment explanation
Indices: 96543--96686 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 70
96533 AATTTAGTGA
*
96543 TTATAAATAAAATTTATAATATAAGAATTATAAATAA-TATAAAGAATT-TGAATTAATATAAAA
1 TTATAAATAAAATTTATAATATAAGAATTATAAAAAATTA-AAAGAATTGT-AATTAATATAAAA
96606 A-TCAAAT
64 ACT-AAAT
96613 TTATAATATACAAA-TTATAATATAAGAATTATAAAAAATTAAAAGAATTGTAATTAATATAAAA
1 TTATAA-ATA-AAATTTATAATATAAGAATTATAAAAAATTAAAAGAATTGTAATTAATATAAAA
96677 ACTAAAT
64 ACTAAAT
96684 TTA
1 TTA
96687 ATTATATTAA
Statistics
Matches: 68, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
70 6 0.09
71 55 0.81
72 7 0.10
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (70 bp):
TTATAAATAAAATTTATAATATAAGAATTATAAAAAATTAAAAGAATTGTAATTAATATAAAAAC
TAAAT
Found at i:97675 original size:2 final size:2
Alignment explanation
Indices: 97668--97692 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
97658 TTAATCATTA
97668 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
97693 ATGATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98280 original size:37 final size:37
Alignment explanation
Indices: 98194--98272 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
98184 TTTTTATAAT
98194 TAAAGAACAAAATGGATAACATACTTCACGAAAAAAA
1 TAAAGAACAAAATGGATAACATACTTCACGAAAAAAA
98231 TAAAGAACAAAATGGATAACATACTTCACGAAAAAAA
1 TAAAGAACAAAATGGATAACATACTTCACGAAAAAAA
98268 TAAAG
1 TAAAG
98273 GTCAAAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.59, C:0.13, G:0.11, T:0.16
Consensus pattern (37 bp):
TAAAGAACAAAATGGATAACATACTTCACGAAAAAAA
Found at i:98484 original size:26 final size:26
Alignment explanation
Indices: 98423--98472 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
98413 TTTATAGGTA
98423 ATTT-ATTTTATTTTTCTATAAAATT
1 ATTTAATTTTATTTTTCTATAAAATT
* *
98448 ATTTAAGTTTA-TTTTCTCTAAAATT
1 ATTTAATTTTATTTTTCTATAAAATT
98473 TTATAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTAATTTTATTTTTCTATAAAATT
Found at i:100396 original size:12 final size:14
Alignment explanation
Indices: 100351--100400 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
100341 GAAGATAATT
100351 ATATATATAT-ATA
1 ATATATATATCATA
100364 TATATATATATCATA
1 -ATATATATATCATA
*
100379 ATATATAT-TCTTA
1 ATATATATATCATA
100392 A-ATATATAT
1 ATATATATAT
100401 TAAGCATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 6 0.18
13 6 0.18
14 18 0.55
15 3 0.09
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATATATATCATA
Found at i:100400 original size:2 final size:2
Alignment explanation
Indices: 100350--100386 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
100340 AGAAGATAAT
100350 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T
100387 TCTTAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:105506 original size:21 final size:21
Alignment explanation
Indices: 105482--105531 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
105472 AATAAACCCT
**
105482 AAACCCTAAACCCTAAATTGC
1 AAACCCTAAACCCTAAATCAC
*
105503 AAACCCTAAACTCTAAATCAC
1 AAACCCTAAACCCTAAATCAC
105524 AAACCCTA
1 AAACCCTA
105532 TGCATAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACCCTAAATCAC
Found at i:105518 original size:7 final size:7
Alignment explanation
Indices: 105474--105498 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
105464 TATTACACAA
105474 TAAACCC
1 TAAACCC
105481 TAAACCC
1 TAAACCC
105488 TAAACCC
1 TAAACCC
105495 TAAA
1 TAAA
105499 TTGCAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:105656 original size:14 final size:13
Alignment explanation
Indices: 105639--105689 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
105629 CCTTAAACCC
*
105639 TAAACTCTAAATT
1 TAAACTCTAAACT
*
105652 ATAAACTATAAACT
1 -TAAACTCTAAACT
*
105666 TAAACCCTAAACCT
1 TAAACTCTAAA-CT
105680 TAAACTCTAA
1 TAAACTCTAA
105690 GCCCTAAGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAACTCTAAACT
Found at i:105712 original size:158 final size:158
Alignment explanation
Indices: 105421--105715 Score: 340
Period size: 158 Copynumber: 1.9 Consensus size: 158
105411 CATTGTATAT
* *
105421 TACTAAAAGAAAAATTAAAGCTCATTTAATTAAGCACATGTTATATTACACAATAAACCCTAAAC
1 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATGTTAGATTACACAATAAACCCTAAAC
* * * * * * * * * *
105486 CCTAAACCCTAAATTGCAAACCCTAAACTCTAAATCACAAACCCTATGCATAATCTCTAAACCCT
66 CCTAAACCATAAACTACAAACCCTAAACCCTAAACCACAAACCCTAAGCATAAGCCCCAAACCAT
105551 AAACCCTTAATCTGATTATGTAATAGGG
131 AAACCCTTAATCTGATTATGTAATAGGG
* **
105579 TACTAAAAGAAAAATAAAAGTTCATTTAATTAAGCACATGTTAGATTACACCTTAAACCCTAAAC
1 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATGTTAGATTACACAATAAACCCTAAAC
* ** * * ** * * **
105644 TCTAAATTATAAACTATAAA-CTTAAACCCTAAACCTTAAACTCTAAGCCCTAAGCCCCAAGTCA
66 CCTAAACCATAAACTACAAACCCTAAACCCTAAACCACAAACCCTAAG-CATAAGCCCCAAACCA
105708 TAAACCCT
130 TAAACCCT
105716 AAACCTTAAG
Statistics
Matches: 110, Mismatches: 26, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
157 20 0.18
158 90 0.82
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.26
Consensus pattern (158 bp):
TACTAAAAGAAAAATAAAAGCTCATTTAATTAAGCACATGTTAGATTACACAATAAACCCTAAAC
CCTAAACCATAAACTACAAACCCTAAACCCTAAACCACAAACCCTAAGCATAAGCCCCAAACCAT
AAACCCTTAATCTGATTATGTAATAGGG
Found at i:105715 original size:21 final size:21
Alignment explanation
Indices: 105691--105742 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
105681 AAACTCTAAG
*
105691 CCCTAAGCCCCAAGTCATAAA
1 CCCTAAACCCCAAGTCATAAA
**
105712 CCCTAAACCTTAAGTCATAAA
1 CCCTAAACCCCAAGTCATAAA
*
105733 TCCTAAACCC
1 CCCTAAACCC
105743 TTAATCTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.37, G:0.06, T:0.19
Consensus pattern (21 bp):
CCCTAAACCCCAAGTCATAAA
Found at i:107155 original size:23 final size:23
Alignment explanation
Indices: 107113--107224 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
107103 ATTGAGTTTG
* * *
107113 AATTAAGCTTGATTCAAGCTCAA
1 AATTGAGCTTGAATCGAGCTCAA
* * *
107136 AATCGAGCTTGAATTGAGCTTAA
1 AATTGAGCTTGAATCGAGCTCAA
* * * *
107159 AATTGAGTTTGAATCAAGTTTAA
1 AATTGAGCTTGAATCGAGCTCAA
*
107182 AATTGAGCTTGAATCGAACTCAA
1 AATTGAGCTTGAATCGAGCTCAA
107205 AATTGAGCTTGAATCGAGCT
1 AATTGAGCTTGAATCGAGCT
107225 TGAGTTTTGA
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (23 bp):
AATTGAGCTTGAATCGAGCTCAA
Found at i:107156 original size:11 final size:11
Alignment explanation
Indices: 107093--107251 Score: 59
Period size: 11 Copynumber: 13.9 Consensus size: 11
107083 AAGTAACCTG
*
107093 TTGAGCTTTAA
1 TTGAGCTTGAA
*
107104 TTGAGTTTGAA
1 TTGAGCTTGAA
*
107115 TTAAGCTTG-A
1 TTGAGCTTGAA
* **
107125 TTCAAGCTCAAAA
1 TT-GAGCT-TGAA
*
107138 TCGAGCTTGAA
1 TTGAGCTTGAA
*
107149 TTGAGCTTAAAA
1 TTGAGCTT-GAA
*
107161 TTGAGTTTGAA
1 TTGAGCTTGAA
** * *
107172 TCAAGTTTAAAA
1 TTGAGCTT-GAA
107184 TTGAGCTTGAA
1 TTGAGCTTGAA
* * **
107195 TCGAACTCAAAA
1 TTGAGCT-TGAA
107207 TTGAGCTTGAA
1 TTGAGCTTGAA
* *
107218 TCGAGCTTGAGTT
1 TTGAGCTTGA--A
* *
107231 TTGAGTTTCAA
1 TTGAGCTTGAA
107242 TTGAGCTTGA
1 TTGAGCTTGA
107252 GATTTTTTTT
Statistics
Matches: 103, Mismatches: 37, Indels: 16
0.66 0.24 0.10
Matches are distributed among these distances:
10 3 0.03
11 64 0.62
12 27 0.26
13 9 0.09
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (11 bp):
TTGAGCTTGAA
Found at i:107190 original size:46 final size:46
Alignment explanation
Indices: 107093--107224 Score: 140
Period size: 46 Copynumber: 2.9 Consensus size: 46
107083 AAGTAACCTG
* ** * *
107093 TTGAGCTTTAATTGAG-TTTGAATTAAGCTTGATTCAAGCTCAAAA
1 TTGAGCTTGAATTGAGCTTAAAATTGAGCTTGAATCAAGCTCAAAA
* * * *
107138 TCGAGCTTGAATTGAGCTTAAAATTGAGTTTGAATCAAGTTTAAAA
1 TTGAGCTTGAATTGAGCTTAAAATTGAGCTTGAATCAAGCTCAAAA
* * * *
107184 TTGAGCTTGAATCGAACTCAAAATTGAGCTTGAATCGAGCT
1 TTGAGCTTGAATTGAGCTTAAAATTGAGCTTGAATCAAGCT
107225 TGAGTTTTGA
Statistics
Matches: 70, Mismatches: 16, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
45 14 0.20
46 56 0.80
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (46 bp):
TTGAGCTTGAATTGAGCTTAAAATTGAGCTTGAATCAAGCTCAAAA
Found at i:107267 original size:24 final size:24
Alignment explanation
Indices: 107207--107257 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
107197 GAACTCAAAA
* *
107207 TTGAGCTTGAATCGAGCTTGAGTT
1 TTGAGTTTGAATTGAGCTTGAGTT
*
107231 TTGAGTTTCAATTGAGCTTGAGATT
1 TTGAGTTTGAATTGAGCTTGAG-TT
107256 TT
1 TT
107258 TTTTTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (24 bp):
TTGAGTTTGAATTGAGCTTGAGTT
Found at i:108314 original size:29 final size:31
Alignment explanation
Indices: 108251--108315 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
108241 CACTTCTCAC
**
108251 TCTCCACAATCCCCAAGTTACCCCCGCAAGT
1 TCTCCACAATCCCCAAGACACCCCCGCAAGT
* *
108282 TCTCCACTAT-CCCAAGACACCCCCGCCA-T
1 TCTCCACAATCCCCAAGACACCCCCGCAAGT
108311 TCTCC
1 TCTCC
108316 TCCCGATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.20
30 15 0.50
31 9 0.30
ACGTcount: A:0.23, C:0.49, G:0.08, T:0.20
Consensus pattern (31 bp):
TCTCCACAATCCCCAAGACACCCCCGCAAGT
Found at i:109785 original size:17 final size:18
Alignment explanation
Indices: 109763--109796 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
109753 TTAACCGGTC
109763 CGGTTC-GAACGGTTCAG
1 CGGTTCTGAACGGTTCAG
109780 CGGTTCTGAACGGTTCA
1 CGGTTCTGAACGGTTCA
109797 TTAGTAACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.18, C:0.24, G:0.32, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAG
Found at i:110156 original size:37 final size:37
Alignment explanation
Indices: 110103--110207 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
110093 CCTTTTCGTC
* *
110103 CTACTAGGATTCAAACTCTTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
110140 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
** *
110177 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
110208 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:110659 original size:9 final size:9
Alignment explanation
Indices: 110626--110667 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
110616 TATATGTATA
*
110626 TATTTAATT
1 TATTTTATT
110635 ATATTTTATT
1 -TATTTTATT
110645 TA-TTTATT
1 TATTTTATT
110653 TATTTTATT
1 TATTTTATT
110662 TATTTT
1 TATTTT
110668 TCATTTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.27
9 14 0.47
10 8 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TATTTTATT
Found at i:110675 original size:17 final size:17
Alignment explanation
Indices: 110637--110674 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
110627 ATTTAATTAT
*
110637 ATTTTATTTATTTATTT
1 ATTTTATTTATTTATTC
110654 ATTTTATTTATTT-TTC
1 ATTTTATTTATTTATTC
110670 ATTTT
1 ATTTT
110675 TCTTTGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTATTTATTTATTC
Found at i:110935 original size:11 final size:11
Alignment explanation
Indices: 110866--110977 Score: 57
Period size: 11 Copynumber: 9.4 Consensus size: 11
110856 ATTATATGTA
110866 TATTTATTTTT
1 TATTTATTTTT
* *
110877 CATTTATTTAT
1 TATTTATTTTT
*
110888 TA-TTATTATTAC
1 TATTTATT-TT-T
*
110900 TATTTAGTATTT
1 TATTTA-TTTTT
*
110912 TA-TTATATGTT
1 TATTTAT-TTTT
110923 TATTTATTTTT
1 TATTTATTTTT
110934 TAGTTAATATTATATGT
1 TA-TT--TATT-T-T-T
110951 ATATTTATTTTT
1 -TATTTATTTTT
*
110963 TATTTATTTAT
1 TATTTATTTTT
110974 TATT
1 TATT
110978 ATTATTACTA
Statistics
Matches: 77, Mismatches: 11, Indels: 26
0.68 0.10 0.23
Matches are distributed among these distances:
10 6 0.08
11 37 0.48
12 11 0.14
13 6 0.08
14 6 0.08
15 5 0.06
16 1 0.01
17 3 0.04
18 2 0.03
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.68
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:110940 original size:86 final size:86
Alignment explanation
Indices: 110844--111005 Score: 315
Period size: 86 Copynumber: 1.9 Consensus size: 86
110834 ACGATTACTA
110844 TTTTTAGTTAATATTATATGTATATTTATTTTTCATTTATTTATTATTATTATTACTATTTAGTA
1 TTTTTAGTTAATATTATATGTATATTTATTTTTCATTTATTTATTATTATTATTACTATTTAGTA
110909 TTTTATTATATGTTTATTTAT
66 TTTTATTATATGTTTATTTAT
*
110930 TTTTTAGTTAATATTATATGTATATTTATTTTTTATTTATTTATTATTATTATTACTATTTAGTA
1 TTTTTAGTTAATATTATATGTATATTTATTTTTCATTTATTTATTATTATTATTACTATTTAGTA
110995 TTTTATTATAT
66 TTTTATTATAT
111006 TATACATACA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 75 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (86 bp):
TTTTTAGTTAATATTATATGTATATTTATTTTTCATTTATTTATTATTATTATTACTATTTAGTA
TTTTATTATATGTTTATTTAT
Found at i:110944 original size:29 final size:29
Alignment explanation
Indices: 110844--110964 Score: 124
Period size: 29 Copynumber: 4.2 Consensus size: 29
110834 ACGATTACTA
110844 TTTTTAGTTAATATTATATGTATATTTAT
1 TTTTTAGTTAATATTATATGTATATTTAT
* * *
110873 TTTTCA-TTTAT-TTATTAT-TAT-TATTAC
1 TTTTTAGTTAATATTA-TATGTATAT-TTAT
* ** *
110900 TATTTAGTATTTTATTATATGTTTATTTAT
1 TTTTTAGT-TAATATTATATGTATATTTAT
110930 TTTTTAGTTAATATTATATGTATATTTAT
1 TTTTTAGTTAATATTATATGTATATTTAT
110959 TTTTTA
1 TTTTTA
110965 TTTATTTATT
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.01
27 13 0.18
28 8 0.11
29 35 0.48
30 15 0.21
31 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (29 bp):
TTTTTAGTTAATATTATATGTATATTTAT
Found at i:111041 original size:42 final size:43
Alignment explanation
Indices: 110995--111082 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 43
110985 CTATTTAGTA
*
110995 TTTTATTATATTATACATAC-ATTT-TATATTTTTATATATATT
1 TTTTATTATATTATACATACTATTTATATATTTTCAT-TATATT
* ** *
111037 TTTTATTATTTTATTTATACTATTTATTTATTTTCATTATATT
1 TTTTATTATATTATACATACTATTTATATATTTTCATTATATT
111080 TTT
1 TTT
111083 AGTTTCTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 17 0.44
43 13 0.33
44 9 0.23
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (43 bp):
TTTTATTATATTATACATACTATTTATATATTTTCATTATATT
Found at i:111055 original size:21 final size:21
Alignment explanation
Indices: 110868--111082 Score: 76
Period size: 21 Copynumber: 10.1 Consensus size: 21
110858 TATATGTATA
*
110868 TTTATT-TTTCATTTAT-TTAT
1 TTTATTATTTTATTTATATT-T
*
110888 TATTATTATTACTATTTAGTATTT
1 T-TTATTATT-TTATTTA-TATTT
110912 TATTA-TATGTTTA-TT-TATTT
1 T-TTATTAT-TTTATTTATATTT
* * * *
110932 TTTAGTTAATATTATATGTA-TA
1 TTTA-TT-ATTTTATTTATATTT
110954 TTTATT-TTTTATTTAT-TTAT
1 TTTATTATTTTATTTATATT-T
*
110974 TATTATTATTACTATTTAGTATTT
1 T-TTATTATT-TTATTTA-TATTT
* ** *
110998 TATTA-TATTATACATACATTT
1 T-TTATTATTTTATTTATATTT
* *
111019 TATA-T-TTTTATATATATTT
1 TTTATTATTTTATTTATATTT
* *
111038 TTTATTATTTTATTTATACTA
1 TTTATTATTTTATTTATATTT
111059 TTTATTTATTTTCA-TTATATTT
1 TTTA-TTATTTT-ATTTATATTT
111081 TT
1 TT
111083 AGTTTCTTTG
Statistics
Matches: 148, Mismatches: 25, Indels: 42
0.69 0.12 0.20
Matches are distributed among these distances:
19 25 0.17
20 12 0.08
21 36 0.24
22 33 0.22
23 23 0.16
24 15 0.10
25 4 0.03
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTATTTATATTT
Found at i:111083 original size:21 final size:21
Alignment explanation
Indices: 111016--111083 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
111006 TATACATACA
111016 TTTTATA-T-TTTTATATATAT
1 TTTTATATTATTTTAT-TATAT
111036 TTTT-TATTATTTTATTTATACT
1 TTTTATATTATTTTA-TTATA-T
*
111058 ATTTAT-TTATTTTCATTATAT
1 TTTTATATTATTTT-ATTATAT
111079 TTTTA
1 TTTTA
111084 GTTTCTTTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 2 0.05
20 5 0.12
21 14 0.35
22 17 0.43
23 2 0.05
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATATTATTTTATTATAT
Found at i:111192 original size:20 final size:19
Alignment explanation
Indices: 111165--111220 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
111155 TTTTATCTTC
111165 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
111184 ATTTAATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
111204 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
111221 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:112081 original size:20 final size:20
Alignment explanation
Indices: 112037--112075 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
112027 TAAGGGTCTG
112037 GCAAGCCCAAGGGGGCACCA
1 GCAAGCCCAAGGGGGCACCA
*
112057 GCAAGCCCAATGGGGCACC
1 GCAAGCCCAAGGGGGCACC
112076 GACAAGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.36, G:0.33, T:0.03
Consensus pattern (20 bp):
GCAAGCCCAAGGGGGCACCA
Found at i:115460 original size:16 final size:14
Alignment explanation
Indices: 115442--115491 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 14
115432 AAAGGGTAAA
115442 AACAAAAAAGAAAAG
1 AACAAAAAAG-AAAG
115457 AAACAAAAAAG-AAG
1 -AACAAAAAAGAAAG
115471 AA-AAAAAAGAAAG
1 AACAAAAAAGAAAG
115484 AACAAAAA
1 AACAAAAA
115492 TAAAAAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.22
13 7 0.22
14 8 0.25
16 10 0.31
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (14 bp):
AACAAAAAAGAAAG
Found at i:115468 original size:11 final size:11
Alignment explanation
Indices: 115439--115499 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
115429 CAAAAAGGGT
*
115439 AAAAACAAAAA
1 AAAAAGAAAAA
*
115450 AGAAAAGAAACA
1 A-AAAAGAAAAA
115462 AAAAAGAAGAAA
1 AAAAAGAA-AAA
115474 AAAAAGAAAGAA
1 AAAAAGAAA-AA
*
115486 CAAAAATAAAAA
1 -AAAAAGAAAAA
115498 AA
1 AA
115500 GGGACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 11 0.26
12 23 0.55
13 8 0.19
ACGTcount: A:0.84, C:0.05, G:0.10, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:115478 original size:23 final size:22
Alignment explanation
Indices: 115439--115499 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
115429 CAAAAAGGGT
*
115439 AAAAACAAA-AAAGAAAAGAAAC
1 AAAAA-AAAGAAAAAAAAGAAAC
*
115461 AAAAAAGAAGAAAAAAAAGAAAG
1 AAAAAA-AAGAAAAAAAAGAAAC
* *
115484 AACAAAAATAAAAAAA
1 AAAAAAAAGAAAAAAA
115500 GGGACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 16 0.48
23 16 0.48
ACGTcount: A:0.84, C:0.05, G:0.10, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAGAAAC
Found at i:117945 original size:106 final size:106
Alignment explanation
Indices: 117093--117944 Score: 1287
Period size: 106 Copynumber: 8.0 Consensus size: 106
117083 ATATCGTGCC
* * * **
117093 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACTTCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
117158 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
117199 ACTCTAGACAACACAAGCTCATCTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
117264 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
117305 ACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
117370 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
117411 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
**
117476 AATTTTGGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
117517 ACTCCAGACAATGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCGAA-AAACAACTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-AACAAACAACTTCC
*
117581 CAATTTCAGAGCCAGTTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
117623 ACTCCAGACAACGCAAGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
117688 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATACTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
117729 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* ** * *
117794 AATTTCGGAGCCAATTTCAACTTCACAATAAAGGATGTTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
117835 ACTCGAGACAACACAAGTCCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* *
117899 CAA-TTCTAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
117941 ACTC
1 ACTC
117945 GGAACAATGC
Statistics
Matches: 684, Mismatches: 58, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
105 7 0.01
106 675 0.99
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:118779 original size:37 final size:37
Alignment explanation
Indices: 118697--118785 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
118687 TCCTACTAGG
* * **
118697 ATTTAAACTCCTAAAAATAGGATATAATTTTGCTAGA
1 ATTTAAACTCCTAAAAATAGGATAGAATTCTAATAGA
* * * **
118734 ATTCAAACTCCTAAAAATATGATAGAGTTCTAATATT
1 ATTTAAACTCCTAAAAATAGGATAGAATTCTAATAGA
118771 ATTTAAACTCCTAAA
1 ATTTAAACTCCTAAA
118786 GATAAGATCC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (37 bp):
ATTTAAACTCCTAAAAATAGGATAGAATTCTAATAGA
Found at i:119225 original size:4 final size:4
Alignment explanation
Indices: 119188--119243 Score: 51
Period size: 4 Copynumber: 13.5 Consensus size: 4
119178 TTAACCCTTA
* * *
119188 TTAT TTAT ATGTAT ATAT TTAA TTAT AT-T TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT -T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
119237 TATAT TT
1 T-TAT TT
119244 TTTTTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
3 2 0.05
4 32 0.76
5 5 0.12
6 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (4 bp):
TTAT
Found at i:119236 original size:23 final size:24
Alignment explanation
Indices: 119189--119236 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
119179 TAACCCTTAT
119189 TATTTATATGTATATATTTAATTA
1 TATTTATATGTATATATTTAATTA
* * *
119213 TATTT-TATTTATTTATTTATTTA
1 TATTTATATGTATATATTTAATTA
119236 T
1 T
119237 TATATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTATATGTATATATTTAATTA
Found at i:119293 original size:26 final size:26
Alignment explanation
Indices: 119209--119303 Score: 67
Period size: 26 Copynumber: 3.7 Consensus size: 26
119199 TATATATTTA
*
119209 ATTATATTTTAT-TTATTTATT-TATTT
1 ATTATATATTATATTATTT-TTCTA-TT
* *
119235 ATTATAT-TTTTTTTCATTTTTCT-TT
1 ATTATATATTATATT-ATTTTTCTATT
*
119260 ACGT-TATATTATATTATTTTTCTATT
1 A-TTATATATTATATTATTTTTCTATT
119286 ATTATATA-TATTATTATT
1 ATTATATATTA-TATTATT
119304 ATTATTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
25 20 0.36
26 31 0.55
27 5 0.09
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.68
Consensus pattern (26 bp):
ATTATATATTATATTATTTTTCTATT
Found at i:119551 original size:22 final size:22
Alignment explanation
Indices: 119526--119586 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
119516 ATTTTTAGAT
119526 TTTTATATATATATTTTTA-TTA
1 TTTTATAT-TATATTTTTATTTA
119548 TTTTAT-TTATATTATTTATTTA
1 TTTTATATTATATT-TTTATTTA
*
119570 TTTT-CATTATATTTTTA
1 TTTTATATTATATTTTTA
119587 GTTTCTTTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 6 0.17
21 9 0.26
22 20 0.57
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTATATTATATTTTTATTTA
Found at i:119554 original size:14 final size:14
Alignment explanation
Indices: 119388--119586 Score: 61
Period size: 14 Copynumber: 13.4 Consensus size: 14
119378 TCTTACTTTA
119388 TTTTATT-TTATAT
1 TTTTATTATTATAT
* *
119401 TTCTATGATTAATAT
1 TTTTATTATT-ATAT
119416 TTTT-TTAGTTAATAT
1 TTTTATTA-TT-ATAT
*
119431 TATATATATATATATATT
1 T-TTTAT-TAT-TATA-T
*
119449 TTTTTTTCATT-TAT
1 TTTTATT-ATTATAT
119463 TTATTATTATTATTACT
1 TT-TTATTATTA-TA-T
* * *
119480 ATTTAGTATTTTAT
1 TTTTATTATTATAT
* *
119494 TATATTA-TACATACAT
1 T-T-TTATTA-TTATAT
* *
119510 TTTTAGATTTTTAGAT
1 TTTT--ATTATTATAT
119526 TTTTA-TATATATAT
1 TTTTATTAT-TATAT
*
119540 TTTTATTATTTTAT
1 TTTTATTATTATAT
*
119554 TTATATTATT-TAT
1 TTTTATTATTATAT
119567 TTATT-TTCATTATAT
1 TT-TTATT-ATTATAT
119582 TTTTA
1 TTTTA
119587 GTTTCTTTGC
Statistics
Matches: 138, Mismatches: 23, Indels: 48
0.66 0.11 0.23
Matches are distributed among these distances:
13 14 0.10
14 42 0.30
15 35 0.25
16 29 0.21
17 13 0.09
18 5 0.04
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (14 bp):
TTTTATTATTATAT
Found at i:119579 original size:13 final size:13
Alignment explanation
Indices: 119527--119570 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
119517 TTTTTAGATT
*
119527 TTTATA-TATATA
1 TTTATATTATTTA
*
119539 TTTTTATTATTTTA
1 TTTATATTA-TTTA
119553 TTTATATTATTTA
1 TTTATATTATTTA
119566 TTTAT
1 TTTAT
119571 TTTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 11 0.41
14 11 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATATTATTTA
Done.