Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 128 of 150
Found at i:38769708 original size:45 final size:44
Alignment explanation
Indices: 38769650--38769753 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 44
38769640 TGCAGAAACT
* *
38769650 CATATGCTTAACATTC-GAA-ATGTTTAACATTCAAAACATAGCTTAA
1 CATA-GCTTAACATTCAAAACATGCTTAACATTC-AAA-AT-GCTTAA
* *
38769696 CATAGCTAAACATTCAAAACTATGCTTAACATTCAAAATGTTTAA
1 CATAGCTTAACATTCAAAAC-ATGCTTAACATTCAAAATGCTTAA
38769741 CATAGCTTAACAT
1 CATAGCTTAACAT
38769754 AGTTTTCAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
45 27 0.54
46 8 0.16
47 3 0.06
48 12 0.24
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (44 bp):
CATAGCTTAACATTCAAAACATGCTTAACATTCAAAATGCTTAA
Found at i:38769891 original size:15 final size:15
Alignment explanation
Indices: 38769868--38769897 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38769858 AAACTGTGCC
*
38769868 AAAACAGAATACCAA
1 AAAAAAGAATACCAA
38769883 AAAAAAGAATACCAA
1 AAAAAAGAATACCAA
38769898 GTAATGTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.17, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAGAATACCAA
Found at i:38770139 original size:87 final size:85
Alignment explanation
Indices: 38770014--38770217 Score: 223
Period size: 87 Copynumber: 2.4 Consensus size: 85
38770004 CTTCGGTCTA
* *
38770014 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAA-CTTCAGAGAGAT
1 CTCCACTGTAACCTCAGGGAGATAAGAACTGATGCGATCTACTCCGCTGTAATC-TCAGAGAGAT
* * *
38770078 AAGATCAT-TTATTTTAATCCG
65 AAGATC-TCTGACTTCAATCCG
* * * * * * *
38770099 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA-ACTG-ATGCGATCTACTCCGCTGTAATCTCAGAGAGA
* *
38770164 TAAGATCTCTGGCTTCAATCTG
64 TAAGATCTCTGACTTCAATCCG
*
38770186 CTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 CTCCACTGTAACCTCAGGGAGATAAGAACTGA
38770218 AATATTCACT
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
85 25 0.26
86 5 0.05
87 65 0.68
88 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (85 bp):
CTCCACTGTAACCTCAGGGAGATAAGAACTGATGCGATCTACTCCGCTGTAATCTCAGAGAGATA
AGATCTCTGACTTCAATCCG
Found at i:38770159 original size:43 final size:43
Alignment explanation
Indices: 38770014--38770214 Score: 158
Period size: 44 Copynumber: 4.7 Consensus size: 43
38770004 CTTCGGTCTA
* * * *
38770014 CTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTA
1 CTCCACTGTAA-CTCAGGGAGATAAGATCACTGGCTTCAATCTG
** * * *** * *
38770055 CTCTGCTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCG
1 CTCCACTGTAAC-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * *
38770099 CTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCACTGTAAC-TCAGGGAGATAAGATCACTGGCTTCAATCTG
* *
38770142 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAA-CTCAGGGAGATAAGATCACTGGCTTCAATCTG
38770186 CTCCACTGTAACCTCAGGGAGATAAGATC
1 CTCCACTGTAA-CTCAGGGAGATAAGATC
38770215 TGAAATATTC
Statistics
Matches: 124, Mismatches: 30, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
40 1 0.01
41 22 0.18
42 1 0.01
43 33 0.27
44 67 0.54
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
CTCCACTGTAACTCAGGGAGATAAGATCACTGGCTTCAATCTG
Found at i:38771498 original size:6 final size:6
Alignment explanation
Indices: 38771489--38771559 Score: 67
Period size: 6 Copynumber: 11.7 Consensus size: 6
38771479 CATTTTTCGT
*
38771489 TTTTCA TTTTCA TTTTCA TTTTTCA TTTTTCA TTCTCA TTTTTCA -TTT--
1 TTTTCA TTTTCA TTTTCA -TTTTCA -TTTTCA TTTTCA -TTTTCA TTTTCA
*
38771537 TTTTCA TTCTCA TTTTTCA TTTT
1 TTTTCA TTTTCA -TTTTCA TTTT
38771560 TTTCTTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
4 3 0.05
5 3 0.05
6 26 0.47
7 23 0.42
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:38771502 original size:20 final size:20
Alignment explanation
Indices: 38771488--38771560 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
38771478 CCATTTTTCG
*
38771488 TTTTTCA-TTTTCATTTTCA
1 TTTTTCATTTTTCATTCTCA
38771507 TTTTTCATTTTTCATTCTCA
1 TTTTTCATTTTTCATTCTCA
38771527 TTTTTCATTTTTTTCATTCTCA
1 TTTTTCA--TTTTTCATTCTCA
38771549 TTTTTCATTTTT
1 TTTTTCATTTTT
38771561 TTCTTTTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
19 7 0.14
20 23 0.46
22 20 0.40
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTCATTTTTCATTCTCA
Found at i:38771504 original size:13 final size:13
Alignment explanation
Indices: 38771482--38771559 Score: 85
Period size: 13 Copynumber: 6.3 Consensus size: 13
38771472 GCCTCTCCAT
*
38771482 TTTTCGTTTTTCA
1 TTTTCATTTTTCA
38771495 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
38771507 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
38771521 TTCTCATTTTTCA
1 TTTTCATTTTTCA
38771534 --TT--TTTTTCA
1 TTTTCATTTTTCA
*
38771543 TTCTCATTTTTCA
1 TTTTCATTTTTCA
38771556 TTTT
1 TTTT
38771560 TTTCTTTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
9 7 0.13
11 2 0.04
12 6 0.11
13 33 0.61
14 6 0.11
ACGTcount: A:0.13, C:0.17, G:0.01, T:0.69
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:38771542 original size:22 final size:22
Alignment explanation
Indices: 38771495--38771563 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
38771485 TCGTTTTTCA
*
38771495 TTTTCATTTTCATTTTTCA--T
1 TTTTCATTCTCATTTTTCATTT
38771515 TTTTCATTCTCATTTTTCATTT
1 TTTTCATTCTCATTTTTCATTT
38771537 TTTTCATTCTCATTTTTCATTT
1 TTTTCATTCTCATTTTTCATTT
38771559 TTTTC
1 TTTTC
38771564 TTTTTTTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 18 0.39
22 28 0.61
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTCATTCTCATTTTTCATTT
Found at i:38771556 original size:7 final size:7
Alignment explanation
Indices: 38771479--38771560 Score: 91
Period size: 7 Copynumber: 12.0 Consensus size: 7
38771469 TTAGCCTCTC
38771479 CATTTTT
1 CATTTTT
*
38771486 CGTTTTT
1 CATTTTT
38771493 CA-TTTT
1 CATTTTT
38771499 CA-TTTT
1 CATTTTT
38771505 CATTTTT
1 CATTTTT
38771512 CATTTTT
1 CATTTTT
*
38771519 CA-TTCT
1 CATTTTT
38771525 CATTTTT
1 CATTTTT
38771532 CATTTTTTT
1 CA--TTTTT
*
38771541 CA-TTCT
1 CATTTTT
38771547 CATTTTT
1 CATTTTT
38771554 CATTTTT
1 CATTTTT
38771561 TTCTTTTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
6 22 0.34
7 35 0.55
9 7 0.11
ACGTcount: A:0.13, C:0.17, G:0.01, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:38772490 original size:6 final size:6
Alignment explanation
Indices: 38772481--38772505 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38772471 TTTCTTTTTC
38772481 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
38772506 GATCTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:38772516 original size:18 final size:18
Alignment explanation
Indices: 38772481--38772523 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
38772471 TTTCTTTTTC
*
38772481 TCATTTTCATTTTCATTT
1 TCATTTTCATCTTCATTT
* *
38772499 TCATTTTGATCTTGATTT
1 TCATTTTCATCTTCATTT
*
38772517 TGATTTT
1 TCATTTT
38772524 TTCTTCTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.12, G:0.07, T:0.65
Consensus pattern (18 bp):
TCATTTTCATCTTCATTT
Found at i:38776563 original size:108 final size:105
Alignment explanation
Indices: 38776367--38776572 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 105
38776357 AAAATTCAAG
38776367 AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTCCTCGAA
1 AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTCCTCGAA
* *
38776432 TTTCCGAACGCGAAACATTGCCTTATTTTGAAATTTTGAA
66 TTTCCAAACGCGAAACATTGCCTTATTTAGAAATTTTGAA
* * * *
38776472 AGGATATTTGGCTATTTGGTTGAATGAGAAAAATCGAAACCTAGCACATTAGGGCACGTTTCCTC
1 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAACACATTAGGGCACG-TTCCTC
* *
38776537 GAATTTCCAAACGCTAAATATTGCCTTATTTAGAAA
63 GAATTTCCAAACGCGAAACATTGCCTTATTTAGAAA
38776573 AATCCTCATC
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 26 0.29
107 26 0.29
108 38 0.42
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (105 bp):
AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTCCTCGAA
TTTCCAAACGCGAAACATTGCCTTATTTAGAAATTTTGAA
Found at i:38777256 original size:30 final size:31
Alignment explanation
Indices: 38777207--38777271 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
38777197 ATCTATGAAT
* *
38777207 TATAAAATATATGAAAAAATATGTATGTACA
1 TATAAAATATATGAAAAAATAAGTAAGTACA
* *
38777238 TATAAAGTATAT-AAAAAATAAGTAAGTATA
1 TATAAAATATATGAAAAAATAAGTAAGTACA
38777268 TATA
1 TATA
38777272 TATCAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (31 bp):
TATAAAATATATGAAAAAATAAGTAAGTACA
Found at i:38779022 original size:15 final size:15
Alignment explanation
Indices: 38778999--38779028 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38778989 AAACCGTGCC
*
38778999 AAAACAGAATACCAA
1 AAAAAAGAATACCAA
38779014 AAAAAAGAATACCAA
1 AAAAAAGAATACCAA
38779029 GTAATGTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.17, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAGAATACCAA
Found at i:38780967 original size:22 final size:21
Alignment explanation
Indices: 38780928--38780987 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 21
38780918 GACTAAAGCG
*
38780928 ACCC-AAACCCCAACCCTTAA
1 ACCCAAAACCCCAAACCTTAA
38780948 ACCCAAAACTCCCAAACCTTAA
1 ACCCAAAAC-CCCAAACCTTAA
* *
38780970 ACCCAAAACACTAAACCT
1 ACCCAAAACCCCAAACCT
38780988 ATATCATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.11
21 11 0.31
22 20 0.57
ACGTcount: A:0.45, C:0.43, G:0.00, T:0.12
Consensus pattern (21 bp):
ACCCAAAACCCCAAACCTTAA
Found at i:38781481 original size:114 final size:114
Alignment explanation
Indices: 38781269--38781870 Score: 681
Period size: 114 Copynumber: 5.3 Consensus size: 114
38781259 CCTACATGCA
* *
38781269 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
1 TTTTTCCATAACCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
* * * * *
38781334 TTTTGCGGCGATTCTTACAAAGCGCCTCTAATACTCTGCTTTAGTGGCT
66 TTTTGCGGCGTTTCTTACAAAACGCCGCTAATACTCTGCTATAGTGGCG
* * * * *
38781383 TTTTTCCGTAACCGCCACTAATTTTTATATTCATCAAGACCAAACGATGCGTTTTGGTTAAGATA
1 TTTTTCCATAACCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
* * * *
38781448 TCTTGCGGCGTTTCATACAAAACGCCGCCAATACTATGCTATAGTGGCG
66 TTTTGCGGCGTTTCTTACAAAACGCCGCTAATACTCTGCTATAGTGGCG
* * * *
38781497 TTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAACGCTACGTTTTGGTTAAGATA
1 TTTTTCCATAACCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
** * * *
38781562 TTTTGCAACGTTTCTTA-AAAAGCGCCTCTAATACTCTCCTTTAGTGGCG
66 TTTTGCGGCGTTTCTTACAAAA-CGCCGCTAATACTCTGCTATAGTGGCG
* * * *
38781611 TTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATA
1 TTTTTCCATAACCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
* * * *
38781676 TTTTGCGGCGCTTTC-TATAAAACGCTGCTAATACTGTGCTATAGCGGCG
66 TTTTGCGGCG-TTTCTTACAAAACGCCGCTAATACTCTGCTATAGTGGCG
* * * * * *
38781725 TTTTTACATAAGCGCCACTAATTCTAATATGCCTCAAGACCAAACGCTGTGTTTTTTGTTAAGAT
1 TTTTTCCATAACCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCG-TTTTGGTTAAGAT
* * * * * * * *
38781790 ATTTTGTGGCGTTTAC-TAAAAAATGCCGCTAATAATATACTATAGCGGTG
65 ATTTTGCGGCGTTT-CTTACAAAACGCCGCTAATACTCTGCTATAGTGGCG
* * * *
38781840 -TTTTCCATAAACACCACCAAATCTAATATAC
1 TTTTTCCATAACCGCCACTAATTCTAATATAC
38781871 CTCGGGAACA
Statistics
Matches: 411, Mismatches: 72, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
113 4 0.01
114 349 0.85
115 58 0.14
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (114 bp):
TTTTTCCATAACCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
TTTTGCGGCGTTTCTTACAAAACGCCGCTAATACTCTGCTATAGTGGCG
Found at i:38781675 original size:228 final size:228
Alignment explanation
Indices: 38781269--38781795 Score: 822
Period size: 228 Copynumber: 2.3 Consensus size: 228
38781259 CCTACATGCA
38781269 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
1 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
** * * *
38781334 TTTTGCGGCGATTCTTACAAAGCGCCTCTAATACTCTGCTTTAGTGGCTTTTTTCCGTAACCGCC
66 TTTTGCAACGATTCTTAAAAAGCGCCTCTAATACTCTCCTTTAGTGGCGTTTTTCCGTAACCGCC
* *
38781399 ACTAATTTTTATATTCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCG-TTTCA
131 ACTAATTCTTATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGCTTTC-
*
38781463 TACAAAACGCCGCCAATACTATGCTATAGTGGCG
195 TACAAAACGCCGCCAATACTATGCTATAGCGGCG
* * * *
38781497 TTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAACGCTACGTTTTGGTTAAGATA
1 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
*
38781562 TTTTGCAACGTTTCTTAAAAAGCGCCTCTAATACTCTCCTTTAGTGGCGTTTTTCCGTAACCGCC
66 TTTTGCAACGATTCTTAAAAAGCGCCTCTAATACTCTCCTTTAGTGGCGTTTTTCCGTAACCGCC
* *
38781627 ACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTCT
131 ACTAATTCTTATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGCTTTCT
* * * *
38781692 ATAAAACGCTGCTAATACTGTGCTATAGCGGCG
196 ACAAAACGCCGCCAATACTATGCTATAGCGGCG
* * * *
38781725 TTTTTACATAAGCGCCACTAATTCTAATATGCCTCAAGACCAAACGCTGTGTTTTTTGTTAAGAT
1 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCG-TTTTGGTTAAGAT
38781790 ATTTTG
65 ATTTTG
38781796 TGGCGTTTAC
Statistics
Matches: 270, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
228 248 0.92
229 22 0.08
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (228 bp):
TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
TTTTGCAACGATTCTTAAAAAGCGCCTCTAATACTCTCCTTTAGTGGCGTTTTTCCGTAACCGCC
ACTAATTCTTATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGCTTTCT
ACAAAACGCCGCCAATACTATGCTATAGCGGCG
Found at i:38781871 original size:228 final size:228
Alignment explanation
Indices: 38781269--38781921 Score: 819
Period size: 228 Copynumber: 2.9 Consensus size: 228
38781259 CCTACATGCA
38781269 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
1 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
* * * *
38781334 TTTTGCGGCGATTCTTACAAAGCGCCTCTAATACTCTGCTTTAGTGGCTTTTTTCCGTAACCGCC
66 TTTTGCGGCGTTTCTTAAAAAGCGCCTCTAATACTCTACTTTAGTGG-TGTTTTCCGTAACCGCC
* * * *
38781399 ACTAATTTTTATATTCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCG-TTTCA
130 ACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTCA
*
38781463 TACAAAACGCCGCCAATACTATGCTATAGTGGCG
195 TACAAAACGCCGCCAATACTATGCTATAGCGGCG
* * * *
38781497 TTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAACGCTACGTTTTGGTTAAGATA
1 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
** * *
38781562 TTTTGCAACGTTTCTTAAAAAGCGCCTCTAATACTCTCCTTTAGTGGCGTTTTTCCGTAACCGCC
66 TTTTGCGGCGTTTCTTAAAAAGCGCCTCTAATACTCTACTTTAGTGGTG-TTTTCCGTAACCGCC
38781627 ACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTC-
130 ACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTCA
* * * *
38781691 TATAAAACGCTGCTAATACTGTGCTATAGCGGCG
195 TACAAAACGCCGCCAATACTATGCTATAGCGGCG
* * * *
38781725 TTTTTACATAAGCGCCACTAATTCTAATATGCCTCAAGACCAAACGCTGTGTTTTTTGTTAAGAT
1 TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCG-TTTTGGTTAAGAT
* ** * * * * * * * *
38781790 ATTTTGTGGCGTTTAC-TAAAAAATGCCGCTAATAATATACTATAGCGGTGTTTTCCATAAACAC
65 ATTTTGCGGCGTTT-CTTAAAAAGCGCCTCTAATACTCTACTTTAGTGGTGTTTTCCGTAACCGC
* * * ** * * * * *
38781854 CACCAAATCTAATATACCTCGGGAACAAACGATGCATTTTGGCTAACA-ATTTTTGCGGCGCTTA
129 CACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATA-TTTTGCGGCGCTTT
38781918 CATA
193 CATA
38781922 TAAGCGCCGC
Statistics
Matches: 366, Mismatches: 53, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
227 1 0.00
228 310 0.85
229 54 0.15
230 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (228 bp):
TTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATA
TTTTGCGGCGTTTCTTAAAAAGCGCCTCTAATACTCTACTTTAGTGGTGTTTTCCGTAACCGCCA
CTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTCAT
ACAAAACGCCGCCAATACTATGCTATAGCGGCG
Found at i:38781929 original size:342 final size:342
Alignment explanation
Indices: 38781281--38781935 Score: 766
Period size: 342 Copynumber: 1.9 Consensus size: 342
38781271 TTTACATAAG
*
38781281 CGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGAT
1 CGCCACTAATTCTAATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGAT
* * * * * * *
38781346 TCTTACAAAGCGCCTCTAATACTCTGCTTTAGTGGCTTTTTTCCGTAACCGCCACTAATTTTTAT
66 TCTTACAAAGCGCCTCTAATACTCTGCTATAGCGGCGTTTTTACATAACCGCCACTAATTCTAAT
* *
38781411 ATTCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGTTTCATACAAAACGCCGC
131 ATGCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGTTTCATAAAAAACGCCGC
* * * * * * * * *
38781476 CAATACTATGCTATAGTGGCGTTTTTCCACAAGCGCCACTAATTCTAATATACATTAAGACCAAA
196 CAATAATATACTATAGCGGCGTTTTTCCACAAACACCACCAAATCTAATATACATCAAGAACAAA
* * * * * * *
38781541 CGCTACGTTTTGGTTAAGATATTTTGCAACGTTTCTTAAAAAGCGCCTCTAATACTCTCCTTTAG
261 CGATACATTTTGGCTAAAATATTTTGCAACGTTACATAAAAAGCGCCGCTAATACTCTCCTTTAG
38781606 TGGCGTTTTTCCGTAAC
326 TGGCGTTTTTCCGTAAC
* * *
38781623 CGCCACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCT
1 CGCCACTAATTCTAATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCG-A
* *
38781688 TTCTATA-AAA-CG-CTGCTAATACTGTGCTATAGCGGCGTTTTTACATAAGCGCCACTAATTCT
65 TTCT-TACAAAGCGCCT-CTAATACTCTGCTATAGCGGCGTTTTTACATAACCGCCACTAATTCT
* * * * * * *
38781750 AATATGCCTCAAGACCAAACGCTGTGTTTTTTGTTAAGATATTTTGTGGCGTTT-ACTAAAAAAT
128 AATATGCATCAAGACCAAACGATGCG-TTTTGGTTAAGATATCTTGCGGCGTTTCA-TAAAAAAC
* * * * **
38781814 GCCGCTAATAATATACTATAGCGGTG-TTTTCCATAAACACCACCAAATCTAATATACCTCGGGA
191 GCCGCCAATAATATACTATAGCGGCGTTTTTCCACAAACACCACCAAATCTAATATACATCAAGA
* ** *
38781878 ACAAACGATGCATTTTGGCTAACAAT-TTTTGCGGCGCTTACAT-ATAAGCGCCGCTAAT
256 ACAAACGATACATTTTGGCTAA-AATATTTTGCAACG-TTACATAAAAAGCGCCGCTAAT
38781936 TGTGCTATAT
Statistics
Matches: 258, Mismatches: 48, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
341 2 0.01
342 190 0.74
343 64 0.25
344 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (342 bp):
CGCCACTAATTCTAATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGAT
TCTTACAAAGCGCCTCTAATACTCTGCTATAGCGGCGTTTTTACATAACCGCCACTAATTCTAAT
ATGCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGTTTCATAAAAAACGCCGC
CAATAATATACTATAGCGGCGTTTTTCCACAAACACCACCAAATCTAATATACATCAAGAACAAA
CGATACATTTTGGCTAAAATATTTTGCAACGTTACATAAAAAGCGCCGCTAATACTCTCCTTTAG
TGGCGTTTTTCCGTAAC
Found at i:38782233 original size:17 final size:16
Alignment explanation
Indices: 38782213--38782259 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
38782203 ACACTTTAAT
38782213 AATAATAACATAAACTA
1 AATAATAA-ATAAACTA
*
38782230 AATAAATAAATAAACTT
1 AAT-AATAAATAAACTA
38782247 AA-AATAAAATAAA
1 AATAAT-AAATAAA
38782260 TGAAAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 7 0.26
17 12 0.44
18 5 0.19
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAATAAATAAACTA
Found at i:38785493 original size:11 final size:12
Alignment explanation
Indices: 38785465--38785497 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
38785455 AAATTAGAAC
38785465 TATATTTATAAAA
1 TATATTT-TAAAA
38785478 TATATTTTAAAA
1 TATATTTTAAAA
38785490 -ATATTTTA
1 TATATTTTA
38785498 TCAAGTCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 5 0.25
13 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTTTAAAA
Found at i:38787126 original size:23 final size:25
Alignment explanation
Indices: 38787081--38787141 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
38787071 ATTGAAGAGC
*
38787081 AAGGAAAG-AATCAGGGAGAAGAAA
1 AAGGAAAGAAATCAGGAAGAAGAAA
*
38787105 AGGGAAAGAAATC-GGAAG-AGAAA
1 AAGGAAAGAAATCAGGAAGAAGAAA
38787128 AAGGAAAGGAAATC
1 AAGGAAA-GAAATC
38787142 TTAGAAGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.34
24 17 0.53
25 4 0.12
ACGTcount: A:0.57, C:0.05, G:0.33, T:0.05
Consensus pattern (25 bp):
AAGGAAAGAAATCAGGAAGAAGAAA
Found at i:38787383 original size:22 final size:22
Alignment explanation
Indices: 38787358--38787400 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
38787348 GGCATGGCTA
38787358 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
38787380 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
38787401 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:38794966 original size:15 final size:15
Alignment explanation
Indices: 38794946--38794995 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
38794936 CAGCAAAAGT
38794946 AGAAAAGAA-AGGAAA
1 AGAAAAGAAGAGG-AA
*
38794961 AGAAAATAAGAGGAA
1 AGAAAAGAAGAGGAA
* *
38794976 TGAAAAGAAGAAG-A
1 AGAAAAGAAGAGGAA
38794990 AGAAAA
1 AGAAAA
38794996 AAAACATAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 6 0.21
15 20 0.69
16 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (15 bp):
AGAAAAGAAGAGGAA
Found at i:38796198 original size:32 final size:32
Alignment explanation
Indices: 38796153--38796226 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
38796143 GCAAATATAT
38796153 AATAAA-AAGAAATCAACA-AACAAAAGTAAATA
1 AATAAATAA-AAATCAA-AGAACAAAAGTAAATA
* * *
38796185 AATAAATAAAAATCAAAGCACATAAGTATATA
1 AATAAATAAAAATCAAAGAACAAAAGTAAATA
*
38796217 AATATATAAA
1 AATAAATAAA
38796227 TAAATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 1 0.03
32 33 0.92
33 2 0.06
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (32 bp):
AATAAATAAAAATCAAAGAACAAAAGTAAATA
Found at i:38796231 original size:12 final size:12
Alignment explanation
Indices: 38796214--38796294 Score: 56
Period size: 12 Copynumber: 6.6 Consensus size: 12
38796204 ACATAAGTAT
38796214 ATAAATATATAA
1 ATAAATATATAA
38796226 ATAAATATATAA
1 ATAAATATATAA
* * *
38796238 TAAAAAGTATGTAT
1 -ATAAA-TATATAA
*
38796252 GTAAATATATAGA
1 ATAAATATATA-A
**
38796265 A-AAATATATGT
1 ATAAATATATAA
*
38796276 ATATATATATAA
1 ATAAATATATAA
*
38796288 AGAAATA
1 ATAAATA
38796295 CTCGTATATA
Statistics
Matches: 50, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
11 1 0.02
12 37 0.74
13 7 0.14
14 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
ATAAATATATAA
Found at i:38796268 original size:26 final size:26
Alignment explanation
Indices: 38796226--38796292 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
38796216 AAATATATAA
38796226 ATAAATATATA-ATAAAA-AGTATGTAT
1 ATAAATATATAGA-AAAATA-TATGTAT
*
38796252 GTAAATATATAGAAAAATATATGTAT
1 ATAAATATATAGAAAAATATATGTAT
* *
38796278 ATATATATAAAGAAA
1 ATAAATATATAGAAA
38796293 TACTCGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 33 0.94
27 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (26 bp):
ATAAATATATAGAAAAATATATGTAT
Found at i:38796281 original size:22 final size:22
Alignment explanation
Indices: 38796249--38796308 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
38796239 AAAAAGTATG
*
38796249 TATGTAAATATATAGAAA-AATA
1 TATGTATATATATAGAAAGAA-A
*
38796271 TATGTATATATATATAAAGAAA
1 TATGTATATATATAGAAAGAAA
38796293 TACTCGTATATATATA
1 TA-T-GTATATATATA
38796309 AGAGCAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 19 0.58
23 3 0.09
24 11 0.33
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (22 bp):
TATGTATATATATAGAAAGAAA
Found at i:38796285 original size:24 final size:25
Alignment explanation
Indices: 38796249--38796308 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
38796239 AAAAAGTATG
38796249 TATGTA-A-ATATATAGAA-AAATA-
1 TATGTATATATATATA-AAGAAATAC
38796271 TATGTATATATATATAAAGAAATAC
1 TATGTATATATATATAAAGAAATAC
*
38796296 T-CGTATATATATA
1 TATGTATATATATA
38796309 AGAGCAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.18
23 3 0.09
24 23 0.70
25 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (25 bp):
TATGTATATATATATAAAGAAATAC
Found at i:38796326 original size:3 final size:3
Alignment explanation
Indices: 38796318--38796350 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
38796308 AAGAGCAATT
*
38796318 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38796351 CAAAAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38798059 original size:87 final size:87
Alignment explanation
Indices: 38797955--38798537 Score: 590
Period size: 87 Copynumber: 6.7 Consensus size: 87
38797945 TACCGCTTAG
* * *
38797955 GGAGGCAAGGCTTTGTTTTTGATCTGCTTCGATGTTAACGCAGGAAGGTAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
*
38798020 AACCAGCTCCACTGCAACTGAT
66 AACCAGCTCCACTGCAACCGAT
*
38798042 GGAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
38798107 AACCAGCTCCACTGCAACCGAT
66 AACCAGCTCCACTGCAACCGAT
** *
38798129 GGAGGCAAGGCTTTGTTTTATATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
38798194 AACCAGCTCCACTGCAACCGAT
66 AACCAGCTCCACTGCAACCGAT
* ** * *
38798216 GGAGGCAAGTCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTTTTGTCTTC
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
* *
38798281 AACCAGCTCCA-TCACAATCGA-
66 AACCAGCTCCACT-GCAACCGAT
* * * ** * * * ** *
38798302 GAGACGCGAGG-TTTGTGTCTTCGACCTGCTTCAATGTCAATGCAGGATGGCAAGATCTTTTGTC
1 G-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATC
* *
38798366 TTCAACCAGCTCCA-TCACAACCGA-
63 TTTAACCAGCTCCACT-GCAACCGAT
* * * * ** **
38798390 GAGACGCAAGG-TTTGTGTCTTCGACCTACTTCGCTGTCAATACAGGAAGGCAAGATCTTTTATC
1 G-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATC
* * * *
38798454 TTCAACCAACTCCA-TCACAACTGA-
63 TTTAACCAGCTCCACT-GCAACCGAT
* * * * *
38798478 GAGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGAAAGGCAAGATCTGC
1 G-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC
38798538 AACTTCATTG
Statistics
Matches: 449, Mismatches: 43, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
86 7 0.02
87 248 0.55
88 194 0.43
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (87 bp):
GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
AACCAGCTCCACTGCAACCGAT
Found at i:38798180 original size:43 final size:42
Alignment explanation
Indices: 38797957--38798273 Score: 130
Period size: 43 Copynumber: 7.3 Consensus size: 42
38797947 CCGCTTAGGG
* * *
38797957 AGGCAAGGCTTTGTTTTTGATCTGCTTCGATGTTAACGCAGGA
1 AGGCAAGTCTTTG-TTTTAATCTGCTTCGCTGTTAACGCAGGA
* * * * * * * *
38798000 AGGTAAGATCTGCTATCTTTAACCAGCTCCACTG-CAACTG-ATGG-
1 AGGCAAG-TCT-TTGT-TTTAATCTGCTTCGCTGTTAAC-GCA-GGA
* * *
38798044 AGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGA
1 AGGCAAGTCTTTGTTTT-AATCTGCTTCGCTGTTAACGCAGGA
* * * * * * *
38798087 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTG-CAAC-CGATGG-
1 AGGCAAG-TCT-TTGT-TTTAATCTGCTTCGCTGTTAACGC-A-GGA
*
38798131 AGGCAAGGCTTTGTTTTATATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGTCTTTGTTTTA-ATCTGCTTCGCTGTTAACGCAGGA
* * * * * *
38798174 AGGCAAGATCTGTTATCTTTAACCAGCTCCACTG-CAAC-CGATGG-
1 AGGCAAG-TCT-TTGT-TTTAATCTGCTTCGCTGTTAACGC-A-GGA
*
38798218 AGGCAAGTCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGTCTTTGTTTT-AATCTGCTTCGCTGTTAACGCAGGA
38798261 AGGCAAGATCTTT
1 AGGCAAG-TCTTT
38798274 TGTCTTCAAC
Statistics
Matches: 192, Mismatches: 54, Indels: 55
0.64 0.18 0.18
Matches are distributed among these distances:
41 10 0.05
42 40 0.21
43 48 0.25
44 46 0.24
45 41 0.21
46 7 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (42 bp):
AGGCAAGTCTTTGTTTTAATCTGCTTCGCTGTTAACGCAGGA
Found at i:38798232 original size:174 final size:175
Alignment explanation
Indices: 38797956--38798536 Score: 667
Period size: 174 Copynumber: 3.3 Consensus size: 175
38797946 ACCGCTTAGG
* * * * * *
38797956 GAGGCAAGGCTTTGT-T-TTTGATCTGCTTCGATGTTAACGCAGGAAGGTAAGATCTGCTATCTT
1 GAGGCAAGG-TTTGTGTCTTCGACCTGCTTCAATGTCAACGCAGGAAGGCAAGATCTGTTATCTT
* *
38798019 TAACCAGCTCCACTGCAACTGATGGAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCA
65 TAACCAGCTCCACTGCAACCGATGGAGGCAAGTCTTTGTTTTCGATCTACTTCGCTGTTAACGCA
** * *
38798084 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA-CTGCAACCGATG-
130 GGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATC-ACAACCGA-GA
** * ** *
38798130 GAGGCAAGGCTTTGT-T-TTATATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTT
1 GAGGCAAGG-TTTGTGTCTTCGACCTGCTTCAATGTCAACGCAGGAAGGCAAGATCTGTTATCTT
*
38798193 TAACCAGCTCCACTGCAACCGATGGAGGCAAGTCTTTGTTTTCGATCTGCTTCGCTGTTAACGCA
65 TAACCAGCTCCACTGCAACCGATGGAGGCAAGTCTTTGTTTTCGATCTACTTCGCTGTTAACGCA
* *
38798258 GGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGA
130 GGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGA
* * * * * * *
38798304 GACGCGAGGTTTGTGTCTTCGACCTGCTTCAATGTCAATGCAGGATGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCAATGTCAACGCAGGAAGGCAAGATCTGTTATCTTT
* * * * * *
38798369 AACCAGCTCCA-TCACAACCGA-GAGACGCAAGGT-TTGTGTCTTCGACCTACTTCGCTGTCAAT
66 AACCAGCTCCACT-GCAACCGATG-GAGGCAA-GTCTT-TGTTTTCGATCTACTTCGCTGTTAAC
* * *
38798431 ACAGGAAGGCAAGATCTTTTATCTTCAACCAACTCCATCACAACTGAGA
127 GCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGA
* * *
38798480 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGAAAGGCAAGATCTG
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCAATGTCAACGCAGGAAGGCAAGATCTG
38798537 CAACTTCATT
Statistics
Matches: 354, Mismatches: 45, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
173 6 0.02
174 166 0.47
175 64 0.18
176 118 0.33
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (175 bp):
GAGGCAAGGTTTGTGTCTTCGACCTGCTTCAATGTCAACGCAGGAAGGCAAGATCTGTTATCTTT
AACCAGCTCCACTGCAACCGATGGAGGCAAGTCTTTGTTTTCGATCTACTTCGCTGTTAACGCAG
GAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGA
Found at i:38798358 original size:88 final size:87
Alignment explanation
Indices: 38798152--38798535 Score: 470
Period size: 88 Copynumber: 4.4 Consensus size: 87
38798142 TGTTTTATAT
* * * * * * *
38798152 CTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCA-ACCGAT
1 CTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-T-CACAACGA-
* * *
38798216 G-GAGGCAA-GTCTT-TGTTTTCGAT
63 GAGACGCAAGGT-TTGTGTCTTCGAC
* * *
38798239 CTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGA
1 CTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAA-CGAGA
*
38798304 GACGCGAGGTTTGTGTCTTCGAC
65 GACGCAAGGTTTGTGTCTTCGAC
* *
38798327 CTGCTTCAATGTCAATGCAGGATGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAA-CGAGA
38798392 GACGCAAGGTTTGTGTCTTCGAC
65 GACGCAAGGTTTGTGTCTTCGAC
* * * * *
38798415 CTACTTCGCTGTCAATACAGGAAGGCAAGATCTTTTATCTTCAACCAACTCCATCACAACTGAGA
1 CTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAAC-GAGA
*
38798480 GAGGCAAGGTTTGTGTCTTCGAC
65 GACGCAAGGTTTGTGTCTTCGAC
*
38798503 CTGCTTCACTGTCAATGCAGAAAGGCAAGATCT
1 CTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
38798536 GCAACTTCAT
Statistics
Matches: 264, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
85 2 0.01
86 3 0.01
87 61 0.23
88 198 0.75
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
CTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACGAGAG
ACGCAAGGTTTGTGTCTTCGAC
Found at i:38798485 original size:44 final size:44
Alignment explanation
Indices: 38798261--38798487 Score: 128
Period size: 44 Copynumber: 5.2 Consensus size: 44
38798251 TAACGCAGGA
*
38798261 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATC-GAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAACTCCATCACAA-CAGAGAG
* * * * * ** * **
38798305 ACGCGAGGT-TTGTGTCTTCGACCTGCTTCAATGTCAATGCAG-GA-
1 AGGCAAGATCTTTTGTCTTCAACCAAC-TCCATCACAA--CAGAGAG
* * *
38798349 TGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAACTCCATCACAACAGAGAG
* * * * * *
38798393 ACGCAAGGT-TTGTGTCTTCGACCTACTTCGCTGTCA-ATACAG-GA-
1 AGGCAAGATCTTTTGTCTTCAACCAAC-TC-C-ATCACA-ACAGAGAG
* *
38798437 AGGCAAGATCTTTTATCTTCAACCAACTCCATCACAACTGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAACTCCATCACAACAGAGAG
38798481 AGGCAAG
1 AGGCAAG
38798488 GTTTGTGTCT
Statistics
Matches: 131, Mismatches: 38, Indels: 28
0.66 0.19 0.14
Matches are distributed among these distances:
42 8 0.06
43 33 0.25
44 49 0.37
45 34 0.26
46 7 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (44 bp):
AGGCAAGATCTTTTGTCTTCAACCAACTCCATCACAACAGAGAG
Found at i:38798529 original size:44 final size:43
Alignment explanation
Indices: 38798310--38798531 Score: 133
Period size: 44 Copynumber: 5.0 Consensus size: 43
38798300 GAGAGACGCG
* *
38798310 AGGTTTGTGTCTTCGACCTGCTTCAATGTCAATGCAGGATGGCA
1 AGGTTTGTGTCTTCGACCTGCTTC-ATGTCAATGCAGAAAGGCA
* * * * * ** * * *
38798354 AGATCTTTTGTCTTCAACCAGCTCCATCACAA-CCGAGAGACGCA
1 AGGT-TTGTGTCTTCGACCTGCTTCATGTCAATGC-AGAAAGGCA
* * * *
38798398 AGGTTTGTGTCTTCGACCTACTTCGCTGTCAATACAGGAAGGCA
1 AGGTTTGTGTCTTCGACCTGCTTC-ATGTCAATGCAGAAAGGCA
* * * * ** * ** *
38798442 AGATCTTTTATCTTCAACCAACTCCATCACAACTG-AGAGAGGCA
1 AGGT-TTGTGTCTTCGACCTGCTTCATGTCAA-TGCAGAAAGGCA
38798486 AGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGAAAGGCA
1 AGGTTTGTGTCTTCGACCTGCTTCA-TGTCAATGCAGAAAGGCA
38798530 AG
1 AG
38798532 ATCTGCAACT
Statistics
Matches: 123, Mismatches: 47, Indels: 16
0.66 0.25 0.09
Matches are distributed among these distances:
43 33 0.27
44 57 0.46
45 33 0.27
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (43 bp):
AGGTTTGTGTCTTCGACCTGCTTCATGTCAATGCAGAAAGGCA
Found at i:38799661 original size:21 final size:21
Alignment explanation
Indices: 38799635--38799681 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38799625 GGTATAGCAA
*
38799635 GATCACCACATGCCCTAATCT
1 GATCACCACATGCCCCAATCT
** *
38799656 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
38799677 GATCA
1 GATCA
38799682 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:38799779 original size:16 final size:16
Alignment explanation
Indices: 38799760--38799790 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38799750 CGCCTTGACC
*
38799760 TCTTTTTTTTTCTTTT
1 TCTTTTTTCTTCTTTT
38799776 TCTTTTTTCTTCTTT
1 TCTTTTTTCTTCTTT
38799791 CTTTTTCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TCTTTTTTCTTCTTTT
Found at i:38799783 original size:13 final size:14
Alignment explanation
Indices: 38799760--38799796 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
38799750 CGCCTTGACC
38799760 TCTTT-TTTTTTCT
1 TCTTTCTTTTTTCT
38799773 T-TTTCTTTTTTCT
1 TCTTTCTTTTTTCT
38799786 TCTTTCTTTTT
1 TCTTTCTTTTT
38799797 CTCCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 10 0.45
14 9 0.41
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TCTTTCTTTTTTCT
Found at i:38799798 original size:10 final size:10
Alignment explanation
Indices: 38799760--38799798 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
38799750 CGCCTTGACC
*
38799760 TCTTTTTTTT
1 TCTTTTTCTT
38799770 TCTTTTTCTT
1 TCTTTTTCTT
38799780 T-TTTCTTCTT
1 TCTTT-TTCTT
38799790 TCTTTTTCT
1 TCTTTTTCT
38799799 CCTATTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 3 0.12
10 20 0.77
11 3 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:38799832 original size:11 final size:11
Alignment explanation
Indices: 38799815--38799869 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
38799805 TTTGACTCTG
38799815 ATTTTTTTTATT
1 ATTTTTTTT-TT
*
38799827 TTTTTTGTTTTT
1 ATTTTT-TTTTT
*
38799839 ATTTTGTTTTT
1 ATTTTTTTTTT
* *
38799850 GTTTTTGTTTT
1 ATTTTTTTTTT
38799861 ATTTTTTTT
1 ATTTTTTTT
38799870 AGTCTGAACT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
11 20 0.59
12 11 0.32
13 3 0.09
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (11 bp):
ATTTTTTTTTT
Found at i:38799837 original size:6 final size:6
Alignment explanation
Indices: 38799828--38799860 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
38799818 TTTTTTATTT
*
38799828 TTTTTG TTTTT- ATTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTT
38799861 ATTTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:38799837 original size:17 final size:17
Alignment explanation
Indices: 38799817--38799869 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
38799807 TGACTCTGAT
38799817 TTTTTTTATTTTTTTTG
1 TTTTTTTATTTTTTTTG
*
38799834 TTTTTATT-TTGTTTTTGTT
1 TTTTT-TTATT-TTTTT-TG
38799853 TTTGTTTTATTTTTTTT
1 TTT-TTTTATTTTTTTT
38799870 AGTCTGAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
17 7 0.23
18 8 0.27
19 11 0.37
20 4 0.13
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.87
Consensus pattern (17 bp):
TTTTTTTATTTTTTTTG
Found at i:38800618 original size:17 final size:18
Alignment explanation
Indices: 38800586--38800622 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
38800576 TCTGCACTGT
38800586 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
38800604 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
38800621 AT
1 AT
38800623 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:38804059 original size:32 final size:32
Alignment explanation
Indices: 38804014--38804087 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
38804004 GCAAATATAT
38804014 AATAAA-AAGAAATCAACA-AACAAAAGTAAATA
1 AATAAATAA-AAATCAA-AGAACAAAAGTAAATA
* * *
38804046 AATAAATAAAAATCAAAGCACATAAGTATATA
1 AATAAATAAAAATCAAAGAACAAAAGTAAATA
*
38804078 AATATATAAA
1 AATAAATAAA
38804088 TAAATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 1 0.03
32 33 0.92
33 2 0.06
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (32 bp):
AATAAATAAAAATCAAAGAACAAAAGTAAATA
Found at i:38804139 original size:22 final size:22
Alignment explanation
Indices: 38804114--38804157 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38804104 AGTATGTATG
38804114 TATGTAAATATATAGAA-AAATA
1 TATGTAAATATATA-AAGAAATA
*
38804136 TATGTATATATATAAAGAAATA
1 TATGTAAATATATAAAGAAATA
38804158 CTCGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (22 bp):
TATGTAAATATATAAAGAAATA
Found at i:38804140 original size:30 final size:30
Alignment explanation
Indices: 38804080--38804151 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
38804070 AGTATATAAA
*
38804080 TATATAAATAAATATATAATAAAAAGTATG
1 TATATATATAAATATATAATAAAAAGTATG
* *
38804110 TATGTATGTAAATATATAGA-AAAATA-TATG
1 TATATATATAAATATATA-ATAAAA-AGTATG
38804140 TATATATATAAA
1 TATATATATAAA
38804152 GAAATACTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (30 bp):
TATATATATAAATATATAATAAAAAGTATG
Found at i:38804146 original size:20 final size:22
Alignment explanation
Indices: 38804121--38804169 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
38804111 ATGTATGTAA
38804121 ATATATAGAAA-AATATA-T-GT
1 ATATATAGAAAGAA-ATACTCGT
*
38804141 ATATATATAAAGAAATACTCGT
1 ATATATAGAAAGAAATACTCGT
38804163 ATATATA
1 ATATATA
38804170 TAAGAGCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 13 0.52
21 3 0.12
22 9 0.36
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
ATATATAGAAAGAAATACTCGT
Found at i:38804189 original size:3 final size:3
Alignment explanation
Indices: 38804181--38804243 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
38804171 AAGAGCAATT
*
38804181 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38804229 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
38804244 CAAAAATAAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38806284 original size:27 final size:27
Alignment explanation
Indices: 38806241--38806294 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
38806231 AATAAATTTA
*
38806241 AAATTAAATTATATAAATTAGTAAATT
1 AAATTAAATTATATAAATAAGTAAATT
* *
38806268 AAATT-AATTATTTTAAATAATTAAATT
1 AAATTAAATTA-TATAAATAAGTAAATT
38806295 TTTGACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AAATTAAATTATATAAATAAGTAAATT
Found at i:38810073 original size:3 final size:3
Alignment explanation
Indices: 38810014--38810056 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
38810004 AAACTGATAA
* *
38810014 ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT GTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
38810057 GTTTTTGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:38811230 original size:3 final size:3
Alignment explanation
Indices: 38811224--38811259 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
38811214 TTTATTACTG
38811224 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38811260 ACGTATATTC
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38812380 original size:98 final size:98
Alignment explanation
Indices: 38812211--38812408 Score: 360
Period size: 98 Copynumber: 2.0 Consensus size: 98
38812201 GTACAATAAA
*
38812211 ACTTTAAAGGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
*
38812276 CCTTTAGAATCCCAAACTTGAAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGAAATATTTCCTTT
*
38812309 ACTTTAAAAGAACATCCGCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
*
38812374 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGAAATATTTCCTTT
38812407 AC
1 AC
38812409 GATTTTTAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTTTAGAATCCCAAACTCGAAATATTTCCTTT
Found at i:38813511 original size:19 final size:19
Alignment explanation
Indices: 38813487--38813599 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
38813477 AATCATATAT
38813487 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
38813506 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
38813525 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
38813544 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
38813565 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
38813584 TCTAAGACTGCATATC
1 TCTAAGATTGCATATC
38813600 CTCAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
19 66 0.80
21 17 0.20
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38813574 original size:40 final size:40
Alignment explanation
Indices: 38813487--38813598 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
38813477 AATCATATAT
38813487 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
38813525 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
** *
38813565 TCTTGGATTGCATATCATATCTAAGACTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
38813599 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:38813973 original size:44 final size:45
Alignment explanation
Indices: 38813876--38814717 Score: 805
Period size: 44 Copynumber: 19.1 Consensus size: 45
38813866 GAACAAAATT
* * * *
38813876 TGCTATCTTCGATCTTCTTC-ACACCAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
38813920 TGCTTTCTTCGATCAACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * * *
38813965 TAC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGATAGGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * * *
38814009 TGCTATCTTCGATCTACTTC-ACGCTAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
38814053 TGCTTTCTTCGATCTACTTCGCCACTAGTAT-GGGAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
38814097 TGC-ATCTTCGATCCACTTC-CTACCAACATAGGAAGACAGGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * ** *
38814140 TGCTATCTTCGATCTACTTC-ACGCCAATGCATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
38814184 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATT
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
38814229 TGC-ATCTTCGATCCAC-TC-CCTACTAATATAGGAAGACAGGA-C
1 TGCTATCTTCGATCTACTTCGCC-ACCAATATAGGAAGACAAGATC
* * * *
38814271 TTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
1 -TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
38814316 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
38814361 TGC-ATCTTCGATCCAC-TC-CCTACTAATATAGGAAGACAAGACC
1 TGCTATCTTCGATCTACTTCGCC-ACCAATATAGGAAGACAAGATC
*** * *
38814404 TGCTATCTTCGATCTACTTC-ATGCCAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
38814448 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
38814493 TGC-ATCTTCGATCCAC-TC-CCTACTAATATAGGAAGACAGGATC
1 TGCTATCTTCGATCTACTTCGCC-ACCAATATAGGAAGACAAGATC
* * * *
38814536 TGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * *
38814580 TGCTTTCTTCGATCTACTTCGCAACCAGTATAGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
* * * *
38814625 TGC-ATCTTCGATCCAC-TC-CCTACTAATATAGGAAGACAGGACC
1 TGCTATCTTCGATCTACTTCGCC-ACCAATATAGGAAGACAAGATC
* * * *
38814668 TGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
38814712 TGCTAT
1 TGCTAT
38814718 TTTTAACCTG
Statistics
Matches: 638, Mismatches: 137, Indels: 46
0.78 0.17 0.06
Matches are distributed among these distances:
42 13 0.02
43 118 0.18
44 372 0.58
45 135 0.21
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (45 bp):
TGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
Found at i:38814294 original size:132 final size:131
Alignment explanation
Indices: 38813875--38814715 Score: 1432
Period size: 132 Copynumber: 6.4 Consensus size: 131
38813865 AGAACAAAAT
* * *
38813875 TTGCTATCTTCGATCTTCTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCAACTTC
1 TTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * * *
38813940 GCCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGATAG
66 GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC-TCCCTACTAATATAGGAAGACAG
38814005 GA
130 GA
*
38814007 TCTGCTATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 T-TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
* * * *
38814072 CGCCACTAGTATGGG-AGACAAGATCTGCATCTTCGATCCACTTCCTACCAACATAGGAAGACAG
65 CGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAG
38814136 GA
130 GA
*
38814138 TCTGCTATCTTCGATCTACTTCACGCCAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 T-TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
*
38814203 CGCCACCAGTATGGGAAGACAAGATTTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAG
65 CGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAG
38814268 GA
130 GA
38814270 CTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 -TTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
*
38814335 CGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAA
65 CGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAG
38814400 GA
130 GA
* *
38814402 CCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 -TTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
38814467 CGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAG
65 CGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAG
38814532 GA
130 GA
38814534 TCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 T-TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
* *
38814599 CGCAACCAGTATAGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAG
65 CGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAG
38814664 GA
130 GA
*
38814666 CCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
1 -TTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
38814716 ATTTTTAACC
Statistics
Matches: 676, Mismatches: 28, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
131 98 0.14
132 504 0.75
133 74 0.11
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (131 bp):
TTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
GCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTCCCTACTAATATAGGAAGACAGG
A
Found at i:38814794 original size:44 final size:44
Alignment explanation
Indices: 38814719--38815017 Score: 219
Period size: 44 Copynumber: 6.9 Consensus size: 44
38814709 ATCTGCTATT
* * * * *
38814719 TTTAACCTGCTCCACTACAATTTTAGG-GAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTAT-GGC
* *
38814763 TTTAATCTGTTCCACTGCAACTTC-GGAGAGATAAGATT-TGCC
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTATGGC
* * *
38814805 ATCTTCAGTCTGCTTCACTGCAACTTCAGGAG-GATAAGACT-T-GC
1 -T-TT-AATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTATGGC
* * *
38814849 TTAGTTAGTCTGCTCCACTGCAACTTCAGG-GAGATAAGACTA--GA
1 -T--TTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTATGGC
*** * * **
38814893 TGCGATCTG-TTCACTGCAACTTCA-GAGAGATAAGATCTGTGAT
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGAT-TATGGC
* *
38814936 TTTAATCCGCTCCACTGCAACTTCAGGA-AGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTAT-GGC
*
38814980 TCTAATCTGCTCCACTGCAACTTCAGG-GAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATT
38815018 TGCCATCTTC
Statistics
Matches: 202, Mismatches: 37, Indels: 32
0.75 0.14 0.12
Matches are distributed among these distances:
39 1 0.00
40 23 0.11
41 5 0.02
42 2 0.01
43 13 0.06
44 123 0.61
45 31 0.15
46 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGATTATGGC
Found at i:38814927 original size:84 final size:85
Alignment explanation
Indices: 38814813--38814968 Score: 221
Period size: 84 Copynumber: 1.8 Consensus size: 85
38814803 CCATCTTCAG
* * *
38814813 TCTGCTTCACTGCAACTTCAGGAGGATAAGA-CT-TGCTTAGTTAGTCTGCTCCACTGCAACTTC
1 TCTGCTTCACTGCAACTTCAGGAGGATAAGATCTGTGATT--TTAATCCGCTCCACTGCAACTTC
*
38814876 AGGGAGATAAGACTAGATGCGA
64 AGGAAGATAAGACTAGATGCGA
38814898 TCTG-TTCACTGCAACTTCA-GAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCA
1 TCTGCTTCACTGCAACTTCAGGAG-GATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCA
38814961 GGAAGATA
65 GGAAGATA
38814969 GGATTATCGG
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
83 3 0.05
84 51 0.80
85 6 0.09
86 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (85 bp):
TCTGCTTCACTGCAACTTCAGGAGGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAG
GAAGATAAGACTAGATGCGA
Found at i:38814992 original size:128 final size:130
Alignment explanation
Indices: 38814767--38815015 Score: 326
Period size: 128 Copynumber: 1.9 Consensus size: 130
38814757 ATCGGCTTTA
* * * * *
38814767 ATCTGTTCCACTGCAACTTCGGAGAGATAAGATTTGCCATCTTCAGTCTGCTTCACTGCAACTTC
1 ATCTGTTCCACTGCAACTTCAGAGAGATAAGATCTGCCATCTTCAATCCGCTCCACTGCAACTTC
* * * *
38814832 AGGAGGATAAGACTTGCTTAGTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
66 AGGAAGATAAGACTTGATCAGTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
** *
38814897 ATCTGTT-CACTGCAACTTCAGAGAGATAAGATCTGTGAT-TTTAATCCGCTCCACTGCAACTTC
1 ATCTGTTCCACTGCAACTTCAGAGAGATAAGATCTGCCATCTTCAATCCGCTCCACTGCAACTTC
* *
38814960 AGGAAGATAGGA-TT-ATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
66 AGGAAGATAAGACTTGATCAG-T-TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
38815016 TTTGCCATCT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
126 2 0.02
127 3 0.03
128 63 0.61
129 28 0.27
130 7 0.07
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (130 bp):
ATCTGTTCCACTGCAACTTCAGAGAGATAAGATCTGCCATCTTCAATCCGCTCCACTGCAACTTC
AGGAAGATAAGACTTGATCAGTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
Found at i:38815144 original size:44 final size:44
Alignment explanation
Indices: 38815096--38815937 Score: 126
Period size: 44 Copynumber: 19.2 Consensus size: 44
38815086 TATCTTGGAA
*
38815096 AGATAAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGTTCCACTACTGCTTAGGG
* ** * * * *
38815140 AGATAAGA-TCTACAATCTTCAACCT-TCTCCGCTGCTGCTCAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGT-TCCACTACTGCTTAGGG
* ** * * *
38815184 AGATAAGCTT-GGTGGC-TCAAATCTACTTCTCACTA-T-CTT-GGAA
1 AGATAAGATTCGCCGTCTTC-AATCT-GTTC-CACTACTGCTTAGG-G
* *
38815227 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGTTCCACTACTGCTTAGGG
* ** * * ** * * *
38815271 AGATAAGA-TCTACAATTTTTAGCCT-TCTCCGCTGCTGCTCAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGT-TCCACTACTGCTTAGGG
* * ** * * *
38815315 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTG-TT-CCACTACTGCTTAGG-G
* * * *
38815359 AGATAAGATTCGCCGACTTCGATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGTTCCACTACTGCTTAGGG
* ** * * *
38815403 AGATAAGA-TCTACAATCTTCAACCT-TCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGT-TCCACTACTGCTTAGGG
* * ** * *
38815447 AGACAAGGCTT-GGTGGC-TCAAATCTGCTTTCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTC-AATCTG--TTCCACTACTGCTTAGG-G
* * * *
38815491 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTACTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGTTCCACTACTGCTTAGGG
* ** * * * *
38815535 AGATAAGA-TCTACAATCTTCAACCT-TCTCCGCTGCTGCTCAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGT-TCCACTACTGCTTAGGG
* * ** * * *
38815579 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTG-TT-CCACTACTGCTTAGG-G
* *
38815623 AGATAAGATTCG-CGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGTTCCACTACTGCTTAGGG
** ** * * * * *
38815666 AGATAAGATTTACAATTTTCAACCT-TCTCCGCTGCTGCTCAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGT-TCCACTACTGCTTAGGG
* * ** * * *
38815710 AGACAAAGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGA-TAAGATTCGCCGTCTTCAATCTG-TT-CCACTACTGCTTAGG-G
* * * *
38815754 AGATAAGATTC-ACGTCTTCGATCCGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGTTCCACTACTGCTTAGGG
* ** * * *
38815797 AGATAAGA-TCTACAATCTTCAACCT-TCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGT-TCCACTACTGCTTAGGG
* * ** * *
38815841 AGACAAGGCTT-GGTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTC-AATCTG-TT-CCACTACTGCTTAGG-G
* * * *
38815885 AGATAAGATTCGACGTCTTCGATCTGCTCCACTACTACTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGTTCCACTACTGCTTAGGG
38815929 AGATAAGAT
1 AGATAAGAT
38815938 CTACAATCTT
Statistics
Matches: 533, Mismatches: 188, Indels: 154
0.61 0.21 0.18
Matches are distributed among these distances:
41 12 0.02
42 33 0.06
43 104 0.20
44 315 0.59
45 37 0.07
46 31 0.06
47 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCCGTCTTCAATCTGTTCCACTACTGCTTAGGG
Found at i:38815239 original size:131 final size:132
Alignment explanation
Indices: 38814984--38816044 Score: 1750
Period size: 132 Copynumber: 8.1 Consensus size: 132
38814974 ATCGGCTCTA
* ** * * * *
38814984 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAACCTTCTCCACTGCTGCTCA
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCA
*
38815049 GGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCT
65 GGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCT
38815114 TCG
130 TCG
*
38815117 ATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* * * *
38815182 GGAGATAA-GCTTGGTGGCTCAAATCTACTTCTCACTATCTTGGAAAGATAAGATTCGCCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
38815246 CG
131 CG
* * *
38815248 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTTAGCCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
*
38815313 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGACTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
38815378 CG
131 CG
* *
38815380 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* * *
38815445 GGAGACAAGGCTTGGTGGCTCAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
38815510 CG
131 CG
*
38815512 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
38815577 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG-CGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
38815641 CG
131 CG
* *
38815643 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTACAATTTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* *
38815708 GGAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-ACGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
38815772 CG
131 CG
* *
38815774 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* *
38815839 GGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGACGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
38815904 CG
131 CG
* * *
38815906 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTTAACCTTCTCCGCTGATGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
* * *
38815971 GGAGACAGGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTGGTCGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
*
38816036 TG
131 CG
38816038 ATCTGCT
1 ATCTGCT
38816045 TCGCTGTCGG
Statistics
Matches: 868, Mismatches: 57, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
131 373 0.43
132 480 0.55
133 15 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
CG
Found at i:38815315 original size:263 final size:263
Alignment explanation
Indices: 38814984--38816044 Score: 1739
Period size: 263 Copynumber: 4.0 Consensus size: 263
38814974 ATCGGCTCTA
* * * * *
38814984 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAACCTTCTCCACTGCTGCTCA
1 ATCTGCTCCACTACTACTT-AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCA
*
38815049 GGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCT
65 GGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCT
*
38815114 TCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCT
130 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCT
* * *
38815179 CAGGGAGATAAGCTTGGTGGCTCAAATCTACTTCTCACTATCTTGGAAAGATAAGATTCGCCGTC
195 CAGGGAGACAAGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
38815244 TTCG
260 TTCG
* * * * *
38815248 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTTAGCCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAG
*
38815313 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGACTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
* *
38815378 CGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTC
131 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
* *
38815443 AGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTTGCCGTC
196 AGGGAGACAA-GCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
38815508 TTCG
260 TTCG
*
38815512 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAG
1 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAG
38815577 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG-CGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
* *
38815641 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTACAATTTTCAACCTTCTCCGCTGCTGCTC
131 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
* *
38815706 AGGGAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-ACGTC
196 AGGGAGAC-AAGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
38815770 TTCG
260 TTCG
* *
38815774 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAG
* *
38815839 GGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGACGTCTT
66 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
* * *
38815904 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTTAACCTTCTCCGCTGATGCTC
131 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
* * * *
38815969 AGGGAGACAGGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTGGTCGTC
196 AGGGAGACA-AGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
*
38816034 TTTG
260 TTCG
38816038 ATCTGCT
1 ATCTGCT
38816045 TCGCTGTCGG
Statistics
Matches: 745, Mismatches: 47, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
262 128 0.17
263 413 0.55
264 204 0.27
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (263 bp):
ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAG
GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
AGGGAGACAAGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCT
TCG
Found at i:38822276 original size:19 final size:19
Alignment explanation
Indices: 38822220--38822355 Score: 119
Period size: 19 Copynumber: 6.8 Consensus size: 19
38822210 AAATTAAATC
*
38822220 TCTAAGATTACAAAATCATATA
1 TCTAAGATTAC-ATATC--ATA
* *
38822242 TTCTAATATTGCATATCATA
1 -TCTAAGATTACATATCATA
*
38822262 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
* *
38822281 TCTAAGATTGCATATCATG
1 TCTAAGATTACATATCATA
*
38822300 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
** *
38822321 TCTTGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
38822340 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
38822356 CTCAAAAATT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
19 63 0.68
20 3 0.03
21 14 0.15
22 4 0.04
23 9 0.10
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:38822330 original size:40 final size:40
Alignment explanation
Indices: 38822243--38822354 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 40
38822233 AATCATATAT
*
38822243 TCTAATATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
38822281 TCTAAGATTGCATATCATGTCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
38822321 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
38822355 CCTCAAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
38 26 0.39
40 41 0.61
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:38823283 original size:13 final size:13
Alignment explanation
Indices: 38823265--38823289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38823255 TAATTACTTA
38823265 TATTATTTTTTAT
1 TATTATTTTTTAT
38823278 TATTATTTTTTA
1 TATTATTTTTTA
38823290 CTTCAAATTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTATTTTTTAT
Found at i:38823570 original size:21 final size:22
Alignment explanation
Indices: 38823524--38823570 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
38823514 TGTATTTTCT
*
38823524 ATATTTTATAATTCATATACAT
1 ATATTTTATAATTCATATACAA
*
38823546 ATATTTT-TAATAT-ATATATAA
1 ATATTTTATAAT-TCATATACAA
38823567 ATAT
1 ATAT
38823571 ACGTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATAATTCATATACAA
Found at i:38823627 original size:2 final size:2
Alignment explanation
Indices: 38823620--38823648 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
38823610 CCTTTAGGTT
38823620 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38823649 CCACATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38823733 original size:4 final size:4
Alignment explanation
Indices: 38823724--38823748 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
38823714 ATTCATCTCT
38823724 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
38823749 ATTTTAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:38825025 original size:17 final size:17
Alignment explanation
Indices: 38825003--38825037 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38824993 TATTTACACC
38825003 TTTTAAATTTA-TAAAAA
1 TTTTAAA-TTAGTAAAAA
38825020 TTTTAAATTAGTAAAAA
1 TTTTAAATTAGTAAAAA
38825037 T
1 T
38825038 AAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTTAAATTAGTAAAAA
Found at i:38826004 original size:2 final size:2
Alignment explanation
Indices: 38825997--38826028 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
38825987 GTAAAAGAAT
38825997 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
38826029 AGAAATGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38828357 original size:17 final size:16
Alignment explanation
Indices: 38828337--38828370 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
38828327 AAAATTAATT
*
38828337 TTAAAAACTAAAGAAAA
1 TTAAAAAATAAA-AAAA
38828354 TTAAAAAATAAAAAAA
1 TTAAAAAATAAAAAAA
38828370 T
1 T
38828371 GTTTGGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
TTAAAAAATAAAAAAA
Found at i:38845302 original size:9 final size:9
Alignment explanation
Indices: 38845239--38845304 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
38845229 TTTCGGTTAA
38845239 ATTAATTATT
1 ATTAA-TATT
*
38845249 -TTAACATT
1 ATTAATATT
38845257 ATTAATATT
1 ATTAATATT
38845266 ATT-ATATT
1 ATTAATATT
* *
38845274 GCATCATTATT
1 --ATTAATATT
38845285 ATT--TATT
1 ATTAATATT
38845292 ATTAATATT
1 ATTAATATT
38845301 ATTA
1 ATTA
38845305 TCCTTATCTC
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
7 7 0.16
8 8 0.18
9 24 0.53
10 2 0.04
11 4 0.09
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTAATATT
Found at i:38847349 original size:24 final size:23
Alignment explanation
Indices: 38847303--38847349 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
38847293 TTAATTATGG
38847303 AATTAATTAAATTTACTTTAAATT
1 AATTAATTAAATTTA-TTTAAATT
38847327 AATTAATTAATATTT-TTTGAAAT
1 AATTAATTAA-ATTTATTT-AAAT
38847350 GGAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 14 0.67
25 4 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTAATTAAATTTATTTAAATT
Found at i:38851670 original size:29 final size:29
Alignment explanation
Indices: 38851638--38851693 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
38851628 TGGTTAAATG
38851638 TATA-ATTTTATACATG-AATTTTGATTT
1 TATATATTTTATACATGAAATTTTGATTT
38851665 TATATATTTTATACATGAAATTTTGATTT
1 TATATATTTTATACATGAAATTTTGATTT
38851694 AATCCAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 4 0.15
28 12 0.44
29 11 0.41
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (29 bp):
TATATATTTTATACATGAAATTTTGATTT
Found at i:38855141 original size:14 final size:14
Alignment explanation
Indices: 38855122--38855151 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38855112 TTGTTACAGG
38855122 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTC
38855136 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTC
38855150 TT
1 TT
38855152 GTAGATTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTCTTTTC
Found at i:38857725 original size:26 final size:26
Alignment explanation
Indices: 38857696--38857745 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
38857686 TCCTTTAAAG
* *
38857696 AAATATTTAATTTATAAAAAAAAATC
1 AAATATTTAAATTAAAAAAAAAAATC
*
38857722 AAATCTTTAAATTAAAAAAAAAAA
1 AAATATTTAAATTAAAAAAAAAAA
38857746 AGTTGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (26 bp):
AAATATTTAAATTAAAAAAAAAAATC
Found at i:38865284 original size:13 final size:13
Alignment explanation
Indices: 38865266--38865361 Score: 95
Period size: 13 Copynumber: 7.2 Consensus size: 13
38865256 ATTTTTAATG
38865266 TAATATATTGTTT
1 TAATATATTGTTT
* *
38865279 TAATATACTATTAT
1 TAATATATTGTT-T
*
38865293 AAATATACTT-TTT
1 TAATATA-TTGTTT
*
38865306 TAATATATTATTT
1 TAATATATTGTTT
* *
38865319 TAATATACTGTTA
1 TAATATATTGTTT
38865332 TAATTATATTGTTT
1 TAA-TATATTGTTT
*
38865346 TAATATAATGTTT
1 TAATATATTGTTT
38865359 TAA
1 TAA
38865362 CTTTTAAGTT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
12 2 0.03
13 45 0.66
14 20 0.29
15 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (13 bp):
TAATATATTGTTT
Found at i:38865306 original size:27 final size:27
Alignment explanation
Indices: 38865267--38865361 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
38865257 TTTTTAATGT
38865267 AATATA-TTGTTTTAATATACTATTATA
1 AATATACTTGTTTTAATATACTATT-TA
* *
38865294 AATATACTT-TTTTAATATATTATTTT
1 AATATACTTGTTTTAATATACTATTTA
* * * *
38865320 AATATAC-TGTTATAATTATATTGTTTT
1 AATATACTTGTTTTAA-TATACTATTTA
*
38865347 AATATA-ATGTTTTAA
1 AATATACTTGTTTTAA
38865362 CTTTTAAGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.02
26 13 0.22
27 43 0.73
28 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (27 bp):
AATATACTTGTTTTAATATACTATTTA
Found at i:38865320 original size:40 final size:40
Alignment explanation
Indices: 38865266--38865361 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
38865256 ATTTTTAATG
38865266 TAATATATTGTTTTAATATACTATTATAAATATACTT-TTT
1 TAATATATTGTTTTAATATACTATTATAAATATA-TTGTTT
* * *
38865306 TAATATATTATTTTAATATACTGTTATAATTATATTGTTT
1 TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
*
38865346 TAATATAATGTTTTAA
1 TAATATATTGTTTTAA
38865362 CTTTTAAGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 2 0.04
40 48 0.96
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (40 bp):
TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
Found at i:38865372 original size:27 final size:27
Alignment explanation
Indices: 38865316--38865394 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
38865306 TAATATATTA
* *
38865316 TTTTAATATACTGTTATAATTATATTG
1 TTTTAATATAATGTTATAATTATATAG
* *
38865343 TTTTAATATAATGTTTTAACTTTTA-AG
1 TTTTAATATAATGTTATAA-TTATATAG
* * *
38865370 TTTTAGTATAGTGTTAATAAATATA
1 TTTTAATATAATGTT-ATAATTATA
38865395 CATTTAATTG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 34 0.83
28 7 0.17
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (27 bp):
TTTTAATATAATGTTATAATTATATAG
Found at i:38865412 original size:15 final size:15
Alignment explanation
Indices: 38865394--38865433 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
38865384 TAATAAATAT
38865394 ACATTTAATTGTAAC
1 ACATTTAATTGTAAC
38865409 ACA-TTAATTTGTAAC
1 ACATTTAA-TTGTAAC
*
38865424 ACATTAAATT
1 ACATTTAATT
38865434 TTAGTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (15 bp):
ACATTTAATTGTAAC
Found at i:38865417 original size:14 final size:15
Alignment explanation
Indices: 38865398--38865430 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
38865388 AAATATACAT
38865398 TTAA-TTGTAACACA
1 TTAATTTGTAACACA
38865412 TTAATTTGTAACACA
1 TTAATTTGTAACACA
38865427 TTAA
1 TTAA
38865431 ATTTTAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (15 bp):
TTAATTTGTAACACA
Found at i:38865562 original size:13 final size:13
Alignment explanation
Indices: 38865544--38865578 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
38865534 ATTTTTAATG
38865544 TAATATACTGTTT
1 TAATATACTGTTT
*
38865557 TAATATATTGTTT
1 TAATATACTGTTT
38865570 TAATATACT
1 TAATATACT
38865579 ATTATAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:38865744 original size:13 final size:13
Alignment explanation
Indices: 38865726--38865796 Score: 88
Period size: 13 Copynumber: 5.4 Consensus size: 13
38865716 ATTTTTAATG
38865726 TAATATACTGTTT
1 TAATATACTGTTT
*
38865739 TAATATATTGTTT
1 TAATATACTGTTT
*
38865752 TAATATACTATTAT
1 TAATATACTGTT-T
* *
38865766 AAATATACTTTTT
1 TAATATACTGTTT
*
38865779 TAATATATTGTTT
1 TAATATACTGTTT
38865792 TAATA
1 TAATA
38865797 CACATTAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
13 38 0.78
14 11 0.22
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:38865779 original size:27 final size:26
Alignment explanation
Indices: 38865726--38865785 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
38865716 ATTTTTAATG
* *
38865726 TAATATACTGTTTTAATATATTGTTT
1 TAATATACTATTTAAATATATTGTTT
38865752 TAATATACTATTATAAATATACTT-TTT
1 TAATATACTATT-TAAATATA-TTGTTT
38865779 TAATATA
1 TAATATA
38865786 TTGTTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 11 0.37
27 17 0.57
28 2 0.07
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (26 bp):
TAATATACTATTTAAATATATTGTTT
Found at i:38869028 original size:2 final size:2
Alignment explanation
Indices: 38869011--38869048 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
38869001 GTGTACTTAC
* *
38869011 AT AT TT AT AT AC 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 AT AT AT AT AT AT
38869049 CTTCTTACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38882574 original size:19 final size:17
Alignment explanation
Indices: 38882532--38882576 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
38882522 AAGTTTTGAT
*
38882532 AATTATACATTTAAAAAT
1 AATTATA-ATTTAAAAAA
38882550 AATTATAATTTAATAAACA
1 AATTATAATTTAA-AAA-A
38882569 AATTATAA
1 AATTATAA
38882577 GTACACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 10 0.42
19 8 0.33
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTATAATTTAAAAAA
Found at i:38882754 original size:24 final size:24
Alignment explanation
Indices: 38882711--38882760 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
38882701 AAATTGTGCT
38882711 AATTTAATTTTGATATTTTTATAAA
1 AATTTAATTTT-ATATTTTTATAAA
*
38882736 AATTATAATTTT-TATTTTTTTAAA
1 AATT-TAATTTTATATTTTTATAAA
38882760 A
1 A
38882761 TTGTGCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 4 0.17
26 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
AATTTAATTTTATATTTTTATAAA
Found at i:38883676 original size:16 final size:17
Alignment explanation
Indices: 38883655--38883697 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
38883645 TACATGTGGA
38883655 AAATAATAAAATAAA-T
1 AAATAATAAAATAAATT
* *
38883671 AAATAATACATTAAATT
1 AAATAATAAAATAAATT
*
38883688 AAAAAATAAA
1 AAATAATAAA
38883698 CCTTAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAATAAAATAAATT
Found at i:38883708 original size:19 final size:21
Alignment explanation
Indices: 38883661--38883709 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
38883651 TGGAAAATAA
*
38883661 TAAAATAAATAAATAATACAT
1 TAAATTAAATAAATAATACAT
*
38883682 TAAATTAAA-AAATAA-ACCT
1 TAAATTAAATAAATAATACAT
*
38883701 TAATTTAAA
1 TAAATTAAA
38883710 GAAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 11 0.44
20 6 0.24
21 8 0.32
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATTAAATAAATAATACAT
Found at i:38890767 original size:27 final size:27
Alignment explanation
Indices: 38890737--38890792 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
38890727 AAATCCAATA
*
38890737 TTAAAAATACAATTGTAAAAGATTTAT
1 TTAAAAATACAATTATAAAAGATTTAT
* **
38890764 TTAATAATTGAATTATAAAAGATTTAT
1 TTAAAAATACAATTATAAAAGATTTAT
38890791 TT
1 TT
38890793 TACTAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (27 bp):
TTAAAAATACAATTATAAAAGATTTAT
Found at i:38890909 original size:18 final size:18
Alignment explanation
Indices: 38890888--38890928 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
38890878 AAAAGAAACA
38890888 AATTATTTAAAATTTACT
1 AATTATTTAAAATTTACT
*
38890906 AATTGTTTAAAATTTACT
1 AATTATTTAAAATTTACT
38890924 AATTA
1 AATTA
38890929 AATTGATGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTATTTAAAATTTACT
Found at i:38899814 original size:12 final size:12
Alignment explanation
Indices: 38899797--38899821 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38899787 CTTGAAATGC
38899797 CTTCTCTTCACT
1 CTTCTCTTCACT
38899809 CTTCTCTTCACT
1 CTTCTCTTCACT
38899821 C
1 C
38899822 CTTTCTGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTTCACT
Found at i:38901777 original size:109 final size:109
Alignment explanation
Indices: 38901588--38901920 Score: 508
Period size: 109 Copynumber: 3.1 Consensus size: 109
38901578 AAGATATAAG
* * * *
38901588 AGGATATTTGACTATGTGGTCCAACGAG--AAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
38901651 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAAAGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* *
38901695 AGGATATTCGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
38901760 GAATTTCCAAAAGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAAAGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* *
38901804 AGGATATTTGGCTATTTGGTCGCACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * * **
38901869 GAATTTCCAAATGCAAAACATTACCTTACTTTGAAATTTTTTTA
66 GAATTTCCAAAAGCAAAACATTGCCTTATTTTGAAATTTTTAAA
38901913 AGGATATT
1 AGGATATT
38901921 AATATGCATA
Statistics
Matches: 204, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
107 23 0.11
109 181 0.89
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (109 bp):
AGGATATTCGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAAAGCAAAACATTGCCTTATTTTGAAATTTTTAAA
Found at i:38902583 original size:2 final size:2
Alignment explanation
Indices: 38902528--38902570 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
38902518 AAATAGTACG
*
38902528 TA TA TA TA TA TA TA TA TA TA TA TA TA AA 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
38902570 T
1 T
38902571 TAGCAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:38902682 original size:16 final size:16
Alignment explanation
Indices: 38902663--38902693 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38902653 ATGAATAAAC
38902663 AATAACAATAATAATT
1 AATAACAATAATAATT
*
38902679 AATAATAATAATAAT
1 AATAACAATAATAAT
38902694 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAACAATAATAATT
Found at i:38904223 original size:44 final size:42
Alignment explanation
Indices: 38904170--38904423 Score: 165
Period size: 44 Copynumber: 5.9 Consensus size: 42
38904160 TCCTCGTTTT
* * *
38904170 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCATC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GT-GCATC
* * *
38904214 AGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTG-G-ATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGCAT-C
* * * * *
38904255 AATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGCTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGT-GC-ATC
* * * *
38904300 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TGCATC
** * * *
38904344 TGTCTGCTCCACTGTAACTTCAGGGAGATAAAACTG-G-ATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGCAT-C
* * * **
38904385 GATCTGCTCTATTGCAACTTCAAAGAGATAAGATCTGTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTG
38904424 ATTTTTTTTT
Statistics
Matches: 162, Mismatches: 37, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
40 3 0.02
41 58 0.36
42 4 0.02
43 3 0.02
44 61 0.38
45 31 0.19
46 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (42 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTGCATC
Found at i:38904273 original size:41 final size:41
Alignment explanation
Indices: 38904216--38904417 Score: 154
Period size: 41 Copynumber: 4.8 Consensus size: 41
38904206 GTAGCATCAG
*
38904216 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTGGATGCAA
1 TCTGCTCTATTGCAACTTCAGGGAGATAAGACTGGATGCAA
* * **
38904257 TCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGCTTTTAA
1 TCTGCTCTATTGCAACTTCAGGGAGATAAGA-C--TGG-ATGCAA
* * * * * * * *
38904302 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC-T
1 TCTGCTCTATTGCAACTTCAGGGAGATAAGACTGGATGCAA
* * * *
38904342 TCTGTCTGCTCCACTGTAACTTCAGGGAGATAAAACTGGATGCGA
1 TCTG-CT-CT--ATTGCAACTTCAGGGAGATAAGACTGGATGCAA
**
38904387 TCTGCTCTATTGCAACTTCAAAGAGATAAGA
1 TCTGCTCTATTGCAACTTCAGGGAGATAAGA
38904418 TCTGTGATTT
Statistics
Matches: 125, Mismatches: 27, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
40 3 0.02
41 52 0.42
42 5 0.04
43 2 0.02
44 30 0.24
45 33 0.26
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (41 bp):
TCTGCTCTATTGCAACTTCAGGGAGATAAGACTGGATGCAA
Found at i:38904399 original size:130 final size:130
Alignment explanation
Indices: 38904166--38904423 Score: 417
Period size: 130 Copynumber: 2.0 Consensus size: 130
38904156 GGGTTCCTCG
* *
38904166 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCATCAGTCTGCTCCATTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCATCAGTCTGCTCCACTGCAA
* *
38904231 CTTCAGGGAGATAAGACTGGATGCAATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGC
66 CTTCAGGGAGATAAAACTGGATGCAATCTGCTCTATTGCAACTTCAAAGAGATAAGATCTGTGGC
* ** * * *
38904296 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGTAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCATCAGTCTGCTCCACTGCAA
*
38904361 CTTCAGGGAGATAAAACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGATCTGTG
66 CTTCAGGGAGATAAAACTGGATGCAATCTGCTCTATTGCAACTTCAAAGAGATAAGATCTGTG
38904424 ATTTTTTTTT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 117 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (130 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCATCAGTCTGCTCCACTGCAA
CTTCAGGGAGATAAAACTGGATGCAATCTGCTCTATTGCAACTTCAAAGAGATAAGATCTGTGGC
Found at i:38914769 original size:16 final size:16
Alignment explanation
Indices: 38914737--38914770 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38914727 TTTATGATGT
* *
38914737 AATGCCATGTAGTCAA
1 AATGCCATGCAGCCAA
38914753 AATGCCATGCAGCCAA
1 AATGCCATGCAGCCAA
38914769 AA
1 AA
38914771 CAAAACACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (16 bp):
AATGCCATGCAGCCAA
Found at i:38915880 original size:109 final size:109
Alignment explanation
Indices: 38915691--38916023 Score: 472
Period size: 109 Copynumber: 3.1 Consensus size: 109
38915681 AAGATATAAG
* * * *
38915691 AGGATATTTGGCTATTTGGTCCAACGAG--AAATCAAAACTCAGCACATTAGGGTACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
38915754 GAATTTTCAAATGCAAAACATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* * * *
38915798 AGGATATTCGGCTATTTAGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * * *
38915863 AAATTTCCAAACGCAAAATATTTCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* * *
38915907 AGGATATTTGACAATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTT
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* **
38915972 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTTTTA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
38916016 AGGATATT
1 AGGATATT
38916024 AATATGCATA
Statistics
Matches: 196, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
107 24 0.12
109 172 0.88
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
Found at i:38918228 original size:31 final size:31
Alignment explanation
Indices: 38918190--38918252 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
38918180 AACAGCCCCT
38918190 GCGTGGCACAAAAATCTGATGTAAATATATA
1 GCGTGGCACAAAAATCTGATGTAAATATATA
38918221 GCGTGGCACAAAAATCTGATGTAAATATATA
1 GCGTGGCACAAAAATCTGATGTAAATATATA
38918252 G
1 G
38918253 TTATTTACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (31 bp):
GCGTGGCACAAAAATCTGATGTAAATATATA
Found at i:38919791 original size:68 final size:69
Alignment explanation
Indices: 38919631--38919859 Score: 233
Period size: 64 Copynumber: 3.3 Consensus size: 69
38919621 TGTATGATAC
* * * * *
38919631 AAGTTCTTTGAGCTGAACTTAATATTATGAATTATATATATATATGCACATATGGTTCGAATATA
1 AAGTTCTTTGAGCTGAATTTAAT-GTATGAATTTTATATATATAT--ATATGTGGTTC-AA-ATA
*
38919696 TATA-TT-TA
61 TA-AGTTACA
*
38919704 AAGTTC-TTGAGCTGAATTTAATGTATGAATTTTATATATATATATATGTGGTTCAAATATAGGT
1 AAGTTCTTTGAGCTGAATTTAATGTATGAATTTTATATATATATATATGTGGTTCAAATATAAGT
38919768 TACA
66 TACA
* * *
38919772 AAGTTC-TTGAGCTGAATTTAATGTATGAA--TT-T-TACATACATATGTGGTTCGAATATAAGT
1 AAGTTCTTTGAGCTGAATTTAATGTATGAATTTTATATATATATATATGTGGTTCAAATATAAGT
38919832 TACA
66 TACA
*
38919836 AA-TTCTTTGAACTGAATTTTAATG
1 AAGTTCTTTGAGCTGAA-TTTAATG
38919860 CTGTAAATTA
Statistics
Matches: 140, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
63 3 0.02
64 39 0.28
65 8 0.06
66 2 0.01
67 7 0.05
68 32 0.23
69 9 0.06
71 19 0.14
72 15 0.11
73 6 0.04
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (69 bp):
AAGTTCTTTGAGCTGAATTTAATGTATGAATTTTATATATATATATATGTGGTTCAAATATAAGT
TACA
Found at i:38919851 original size:64 final size:63
Alignment explanation
Indices: 38919703--38919887 Score: 207
Period size: 64 Copynumber: 2.9 Consensus size: 63
38919693 ATATATATTT
* * *
38919703 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATATATATATATGTGGTTCAAATATAGGT
1 AAAGTTCTTGAGCTGAATTTAATGTATGAA--TT-T-TA-ATACATATGTGGTTCGAATATAAGT
38919768 TAC
61 TAC
38919771 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAAGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-ATACATATGTGGTTCGAATATAAGTTAC
* * *
38919835 AAA-TTCTTTGAACTGAATTTTAATG-CTGTAA-ATT-ATACATATGTGGTTCGAAT
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTAATACATATGTGGTTCGAAT
38919888 GTTTGTTTGC
Statistics
Matches: 107, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
62 19 0.18
63 3 0.03
64 43 0.40
65 10 0.09
66 2 0.02
68 30 0.28
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (63 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTAATACATATGTGGTTCGAATATAAGTTAC
Found at i:38920067 original size:41 final size:41
Alignment explanation
Indices: 38920003--38920156 Score: 283
Period size: 41 Copynumber: 3.8 Consensus size: 41
38919993 ATCTAAGATT
*
38920003 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
38920044 ATC-GAGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAG-GTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
38920085 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
38920126 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCC
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCC
38920157 AATGAATTTA
Statistics
Matches: 110, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
40 1 0.01
41 108 0.98
42 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (41 bp):
ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
Found at i:38920244 original size:2 final size:2
Alignment explanation
Indices: 38920195--38920228 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
38920185 ATGCATTGGG
38920195 TA 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
38920229 GTTAGTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38920430 original size:2 final size:2
Alignment explanation
Indices: 38920423--38920453 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38920413 TATGCGTAGG
38920423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38920454 GATTTTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38921902 original size:91 final size:90
Alignment explanation
Indices: 38921727--38921902 Score: 237
Period size: 91 Copynumber: 1.9 Consensus size: 90
38921717 ATATTTTTTC
* * ***
38921727 AAAAAAGAGATTCGAGTTCTAAAATTAAATAATTAAAAATGTTGAAATGGCCTCGACAGAAATCT
1 AAAAAAGAGATTCAAGTTCTAAAATCAAATAATTAAAAATGTTGAAACAACCTCGACAGAAATCT
* *
38921792 CGAAGCTCTCTTATATTTTTTAAAA
66 CGAAGCTCACTCATATTTTTTAAAA
* * *
38921817 AAAAAAGAGATTCAAGTTTTAAAATCAAATAAATTGAAAATGTTGAAACAACCTCGACTGAAATC
1 AAAAAAGAGATTCAAGTTCTAAAATCAAAT-AATTAAAAATGTTGAAACAACCTCGACAGAAATC
38921882 TCGAAGCTCAACTCAT-TTTTT
65 TCGAAGCTC-ACTCATATTTTT
38921903 AGAAAATGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
90 27 0.36
91 43 0.58
92 4 0.05
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (90 bp):
AAAAAAGAGATTCAAGTTCTAAAATCAAATAATTAAAAATGTTGAAACAACCTCGACAGAAATCT
CGAAGCTCACTCATATTTTTTAAAA
Found at i:38923575 original size:21 final size:21
Alignment explanation
Indices: 38923549--38923604 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
38923539 AACAGCGGTG
*
38923549 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
38923570 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
38923591 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
38923605 AACAGCGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:38926500 original size:25 final size:25
Alignment explanation
Indices: 38926472--38926523 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
38926462 GAATATGCTG
38926472 AGAAAAGAAG-ATGAAGAACGGAAGA
1 AGAAAA-AAGAATGAAGAACGGAAGA
*
38926497 AGAAAAAGGAATGAAGAACGGAAGA
1 AGAAAAAAGAATGAAGAACGGAAGA
38926522 AG
1 AG
38926524 GAGAAGGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.60, C:0.04, G:0.33, T:0.04
Consensus pattern (25 bp):
AGAAAAAAGAATGAAGAACGGAAGA
Found at i:38926614 original size:18 final size:18
Alignment explanation
Indices: 38926591--38926626 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38926581 TTTGCAACCC
38926591 AAGGGGAAGGCGAAAGGG
1 AAGGGGAAGGCGAAAGGG
*
38926609 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGCGAAAGGG
38926627 GAGAAGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.58, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGCGAAAGGG
Found at i:38928078 original size:19 final size:19
Alignment explanation
Indices: 38928054--38928166 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
38928044 AATTTTTGAG
38928054 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
38928073 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
38928092 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
38928113 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
38928132 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38928151 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
38928167 ATATATGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 67 0.80
21 17 0.20
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38928099 original size:40 final size:40
Alignment explanation
Indices: 38928055--38928161 Score: 182
Period size: 40 Copynumber: 2.7 Consensus size: 40
38928045 ATTTTTGAGG
38928055 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
**
38928095 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
38928135 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
38928162 TTAGAATATA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
38 23 0.35
40 42 0.65
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
Found at i:38928121 original size:59 final size:56
Alignment explanation
Indices: 38928054--38928173 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 56
38928044 AATTTTTGAG
*
38928054 GATATGCAATCTTAGATATGATATGCAATCCAAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCCAAGATATG--ATATGCAATCTTAGA-AT
* **
38928113 GATATGCAATCTTAGATATGATATATAATCTTAGATATGATATGCAATCTTAGAAT
1 GATATGCAATCTTAGATATGATATACAATCCAAGATATGATATGCAATCTTAGAAT
38928169 -ATATG
1 GATATG
38928174 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
55 5 0.09
56 2 0.04
57 15 0.26
59 35 0.61
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (56 bp):
GATATGCAATCTTAGATATGATATACAATCCAAGATATGATATGCAATCTTAGAAT
Found at i:38928977 original size:23 final size:25
Alignment explanation
Indices: 38928923--38928971 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
38928913 TATGTACATG
*
38928923 TATATTTTTTTAACGAATATTTTCC
1 TATATTTTTTTAAAGAATATTTTCC
38928948 TATATTTTTTTAAAGAATATTTTC
1 TATATTTTTTTAAAGAATATTTTC
38928972 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTTTAAAGAATATTTTCC
Found at i:38935357 original size:44 final size:44
Alignment explanation
Indices: 38935309--38935625 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
38935299 AAGATTGTAG
*
38935309 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
** * ** *
38935353 ATCTTATCT-TTTCAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCT-AAGCAGTAGT-GGAA-CAGATTGAAGACGGCGA
* * * * * * ** *
38935396 AGCCTTGTCTCCCTCAGCAGCAGCGGAGA-AGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGA-ACAGATTGAAGACGGCGA
* *
38935440 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
* * * ** *
38935485 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGAAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GGAA-CAGATTGAAGACGGCGA
* * * * * ** *
38935528 AGCCTTGTCTCCCTCAGCAGTAGCGGAGA-AGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGA-ACAGATTGAAGACGGCGA
*
38935572 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
38935617 ATCTTATCT
1 ATCTTATCT
38935626 TTCCAAGATA
Statistics
Matches: 190, Mismatches: 59, Indels: 48
0.64 0.20 0.16
Matches are distributed among these distances:
42 8 0.04
43 21 0.11
44 138 0.73
45 16 0.08
46 7 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
Found at i:38935717 original size:44 final size:43
Alignment explanation
Indices: 38935403--38935726 Score: 142
Period size: 44 Copynumber: 7.4 Consensus size: 43
38935393 CCAAGCCTTG
* * *
38935403 TCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTCAGCAGTAGCGGAGAAGATTGAAGA-CGTAGATCTTA
* * * * **
38935447 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTA
1 TCTCCCTCAGCAGTAGCGGAGAAGATTGAAGACGTAG-ATCTTA
** * * ** * *
38935491 TCTTTC-CA--AGATAGTGGGAAGAAGATTTAAGCCACCAAG-CCTTG
1 TCTCCCTCAGCAG-TAG-CGG-AGAAGATTGAAG--ACGTAGATCTTA
* *
38935535 TCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTCAGCAGTAGCGGAGAAGATTGAAGA-CGTAGATCTTA
* * * **
38935579 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAATCTTA
1 TCTCCCTCAGCAGTAGCGGAGAAGATTGAAGACGTAG-ATCTTA
** * * ** * *
38935623 TCTTTC-CA--AGATAGTGGGAAGAAGATTTAAGCCACCAAG-CCTTG
1 TCTCCCTCAGCAG-TAG-CGG-AGAAGATTGAAG--ACGTAGATCTTA
* *
38935667 TCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTCAGCAGTAGCGGAGAAGATTGAAGA-CGTAGATCTTA
*
38935711 TCTCCCTAAGCAGTAG
1 TCTCCCTCAGCAGTAG
38935727 TAGAGCAGAT
Statistics
Matches: 198, Mismatches: 60, Indels: 44
0.66 0.20 0.15
Matches are distributed among these distances:
41 4 0.02
42 8 0.04
43 14 0.07
44 148 0.75
45 8 0.04
46 12 0.06
47 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (43 bp):
TCTCCCTCAGCAGTAGCGGAGAAGATTGAAGACGTAGATCTTA
Found at i:38935742 original size:44 final size:44
Alignment explanation
Indices: 38935667--38935757 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
38935657 CCAAGCCTTG
* * * * *
38935667 TCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAG-ATCTTA
1 TCTCCCTAAGCAGTAGCAGAGAAGATCGAAGATAG-AGAATCTTA
* *
38935711 TCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATAGAGAATCTTA
1 TCTCCCTAAGCAGTAGCAGAGAAGATCGAAGATAGAGAATCTTA
38935755 TCT
1 TCT
38935758 TTCCAAGATA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGCAGAGAAGATCGAAGATAGAGAATCTTA
Found at i:38935888 original size:132 final size:132
Alignment explanation
Indices: 38935197--38935868 Score: 1119
Period size: 132 Copynumber: 5.1 Consensus size: 132
38935187 CTGTATTGAC
* **
38935197 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTTTAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
38935262 CAAGACTTGTCTCCTTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
38935327 GT
131 GT
* *
38935329 AGTGGAACAGATCGAAGACGGCGAATCTTATCTTTTCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
38935394 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
38935459 GT
131 GT
*
38935461 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGAAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
38935526 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
38935591 GT
131 GT
* *
38935593 AGTGGAGCAGATTGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGAAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
38935658 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
38935723 GT
131 GT
* ** * *
38935725 AGTAGAGCAGATCGAAGATAGAGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAACCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * * *
38935790 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTGAAGT
66 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT-AAGC
* *
38935855 TGC
130 AGT
38935858 AGTGGAGCAGA
1 AGTGGAGCAGA
38935869 CTAAGTAAGC
Statistics
Matches: 512, Mismatches: 27, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
132 498 0.97
133 14 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Done.