Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 89 of 91
Found at i:34848655 original size:15 final size:15
Alignment explanation
Indices: 34848618--34848685 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
34848608 ATATTATTTT
34848618 TTTATAATTATATTA
1 TTTATAATTATATTA
* * * *
34848633 CTTGTAATAACATTA
1 TTTATAATTATATTA
34848648 TTTATAATTATATTA
1 TTTATAATTATATTA
* *
34848663 TCTATAATCATATTA
1 TTTATAATTATATTA
34848678 TATTATAA
1 T-TTATAA
34848686 AATATCAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
15 36 0.88
16 5 0.12
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (15 bp):
TTTATAATTATATTA
Found at i:34848678 original size:30 final size:30
Alignment explanation
Indices: 34848618--34848685 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
34848608 ATATTATTTT
*
34848618 TTTATAATTATATTACTTGTAATAACATTA
1 TTTATAATTATATTACTTATAATAACATTA
* *
34848648 TTTATAATTATATTA-TCTATAATCATATTA
1 TTTATAATTATATTACT-TATAATAACATTA
34848678 TATTATAA
1 T-TTATAA
34848686 AATATCAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 26 0.79
31 6 0.18
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTATAATTATATTACTTATAATAACATTA
Found at i:34849362 original size:18 final size:18
Alignment explanation
Indices: 34849315--34849363 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
34849305 ATTTGGATCC
* *
34849315 TTTTTTCTATTGGGTTTT
1 TTTTTTCTATTTGTTTTT
*
34849333 GTTTTTCT-TTTGTTTTT
1 TTTTTTCTATTTGTTTTT
34849350 TTTTTTCTATTTGT
1 TTTTTTCTATTTGT
34849364 ATTGTTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.04, C:0.06, G:0.12, T:0.78
Consensus pattern (18 bp):
TTTTTTCTATTTGTTTTT
Found at i:34872121 original size:2 final size:2
Alignment explanation
Indices: 34872114--34872138 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34872104 TGTCATATCG
34872114 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
34872139 AAATTGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:34877781 original size:25 final size:26
Alignment explanation
Indices: 34877753--34877802 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
34877743 ACAACTTTTT
34877753 AATAAAATATTAATA-TTAAATTATA
1 AATAAAATATTAATATTTAAATTATA
*
34877778 AATAAAGTATTAATATTTAAATTAT
1 AATAAAATATTAATATTTAAATTAT
34877803 CAATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
AATAAAATATTAATATTTAAATTATA
Found at i:34883589 original size:18 final size:18
Alignment explanation
Indices: 34883571--34883631 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
34883561 GTTTTTCAAT
*
34883571 AAATATAATTATTTAAAT
1 AAATATAATTATTTAAAC
* *
34883589 AAATATAACT-TTTGAAC
1 AAATATAATTATTTAAAC
*
34883606 AAACT-TAATTATATAAAC
1 AAA-TATAATTATTTAAAC
34883624 AAATATAA
1 AAATATAA
34883632 CTTTCGAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 13 0.38
18 21 0.62
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATATAATTATTTAAAC
Found at i:34883628 original size:35 final size:35
Alignment explanation
Indices: 34883575--34883652 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
34883565 TTCAATAAAT
* * *
34883575 ATAATTATTTAAATAAATATAACTTTTGAACAAAC
1 ATAATTATATAAACAAATATAACTTTCGAACAAAC
* *
34883610 TTAATTATATAAACAAATATAACTTTCGAACAATC
1 ATAATTATATAAACAAATATAACTTTCGAACAAAC
34883645 ATAATTAT
1 ATAATTAT
34883653 TCAATTTTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (35 bp):
ATAATTATATAAACAAATATAACTTTCGAACAAAC
Found at i:34893695 original size:25 final size:26
Alignment explanation
Indices: 34893653--34893710 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
34893643 AGTGACGAAA
*
34893653 ATAATAATATTTAT-AAAAATAAAATT
1 ATAA-AATATTTATAAAAAATAAAAAT
34893679 ATAAAATATTT-TCAAAAAATAAAAAT
1 ATAAAATATTTAT-AAAAAATAAAAAT
34893705 A-AAAAT
1 ATAAAAT
34893711 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.03
25 12 0.41
26 16 0.55
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAAAATATTTATAAAAAATAAAAAT
Found at i:34893716 original size:21 final size:22
Alignment explanation
Indices: 34893650--34893737 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 22
34893640 TTCAGTGACG
34893650 AAAATAATAATATTTATAAAAATA
1 AAAATAA-AATATTTA-AAAAATA
34893674 AAATTATAAAATATTTTCAAAAAATA
1 AAA--ATAAAATA-TTT-AAAAAATA
**
34893700 AAAATAAAA-ATTTAAAATTTA
1 AAAATAAAATATTTAAAAAATA
*
34893721 AAAA-AAAAAATTTAAAA
1 AAAATAAAATATTTAAAA
34893738 TTTTCAGAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.07
21 18 0.32
22 3 0.05
23 1 0.02
24 9 0.16
25 4 0.07
26 17 0.30
27 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAAATATTTAAAAAATA
Found at i:34911449 original size:90 final size:90
Alignment explanation
Indices: 34911297--34911485 Score: 306
Period size: 90 Copynumber: 2.1 Consensus size: 90
34911287 TGGTTATGGC
** * *
34911297 TATGGCTATGGTTCGGCCCATGGTAACCAGAAAAATAGTGGAATGGGCCATGGCTTCAGTAATCA
1 TATGGCTATGGTTCAACCCATGGTAACCACAAAAATAGTGGAAAGGGCCATGGCTTCAGTAATCA
* *
34911362 CACAAGCTATGAAGCAACTGAAGCT
66 CACAAACTATGAAACAACTGAAGCT
34911387 TATGGCTATGGTTCAACCCATGGTAACCACAAAAATAGTGGAAAGGGCCATGGCTTCAGTAATCA
1 TATGGCTATGGTTCAACCCATGGTAACCACAAAAATAGTGGAAAGGGCCATGGCTTCAGTAATCA
*
34911452 CGCAAACTATGAAACAACTGAAGCT
66 CACAAACTATGAAACAACTGAAGCT
*
34911477 TACGGCTAT
1 TATGGCTAT
34911486 TATGACGAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (90 bp):
TATGGCTATGGTTCAACCCATGGTAACCACAAAAATAGTGGAAAGGGCCATGGCTTCAGTAATCA
CACAAACTATGAAACAACTGAAGCT
Found at i:34911897 original size:18 final size:18
Alignment explanation
Indices: 34911876--34911919 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34911866 CAGTGACCAT
* *
34911876 GGCAGTGGCAGCGGCAGC
1 GGCAGTGACAGCGACAGC
*
34911894 GGCAGCGACAGCGACAGC
1 GGCAGTGACAGCGACAGC
*
34911912 GACAGTGA
1 GGCAGTGA
34911920 TTGTGACGAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.27, G:0.43, T:0.05
Consensus pattern (18 bp):
GGCAGTGACAGCGACAGC
Found at i:34912238 original size:2 final size:2
Alignment explanation
Indices: 34912231--34912280 Score: 63
Period size: 2 Copynumber: 27.0 Consensus size: 2
34912221 AATGAGACAA
*
34912231 AT AT AT AT -T AT AT AT AT AT TT AT AT AT AT AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34912270 AT AT AT -T AT AT
1 AT AT AT AT AT AT
34912281 GTATGTATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
1 4 0.10
2 38 0.90
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:34912258 original size:14 final size:13
Alignment explanation
Indices: 34912231--34912280 Score: 77
Period size: 12 Copynumber: 4.0 Consensus size: 13
34912221 AATGAGACAA
34912231 ATATATATTATAT
1 ATATATATTATAT
34912244 ATATAT-TTATAT
1 ATATATATTATAT
*
34912256 ATATATAATATA-
1 ATATATATTATAT
34912268 ATATATATTATAT
1 ATATATATTATAT
34912281 GTATGTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 23 0.70
13 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATTATAT
Found at i:34912323 original size:2 final size:2
Alignment explanation
Indices: 34912316--34912362 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
34912306 NNNACAAAAT
34912316 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34912357 T- TA TA T
1 TA TA TA T
34912363 GTATGTATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:34912340 original size:21 final size:21
Alignment explanation
Indices: 34912314--34912362 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
34912304 NNNNNACAAA
34912314 ATTATATATATATATATATAT
1 ATTATATATATATATATATAT
34912335 ATTATATATATATATATATAT
1 ATTATATATATATATATATAT
34912356 ATTATAT
1 ATTATAT
34912363 GTATGTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATATATATATATATATAT
Found at i:34917429 original size:31 final size:31
Alignment explanation
Indices: 34917386--34917484 Score: 90
Period size: 36 Copynumber: 3.0 Consensus size: 31
34917376 GAAACTTATC
*
34917386 GGATGACTTAACCCATCTCAGCACATAAAGA
1 GGATGACGTAACCCATCTCAGCACATAAAGA
*
34917417 GGATGGCGTAACCCAACTCATCTCAGCACATAAAGA
1 GGATGACGTAA--C--C-CATCTCAGCACATAAAGA
* * * * *
34917453 GGATGACTTAACCAACCTCTGCACATTAAGA
1 GGATGACGTAACCCATCTCAGCACATAAAGA
34917484 G
1 G
34917485 TAACAACATC
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
31 24 0.44
32 1 0.02
33 1 0.02
34 1 0.02
35 1 0.02
36 27 0.49
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.19
Consensus pattern (31 bp):
GGATGACGTAACCCATCTCAGCACATAAAGA
Found at i:34922667 original size:79 final size:79
Alignment explanation
Indices: 34922536--34922691 Score: 242
Period size: 79 Copynumber: 2.0 Consensus size: 79
34922526 CCAACTAGCA
* ** *
34922536 AGGACATTCACAATCTTTTGAAACTAGCAAGTGATCACCGGAATCTTTCCAAACC-AAAAAACCT
1 AGGACAATCACAATCTTTCAAAACTAGCAAGTAATCACCGGAATCTTTCCAAACCGAAAAAA-CT
34922600 ACCACACAAACCTTC
65 ACCACACAAACCTTC
* *
34922615 AGGACAATCACAATCTTTCAAAACTAGCAAGTAATCACTGGAATCTTTCCAAACCGATAAAACTA
1 AGGACAATCACAATCTTTCAAAACTAGCAAGTAATCACCGGAATCTTTCCAAACCGAAAAAACTA
34922680 CCACACAAACCT
66 CCACACAAACCT
34922692 GTAGTTCTCT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
79 65 0.93
80 5 0.07
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (79 bp):
AGGACAATCACAATCTTTCAAAACTAGCAAGTAATCACCGGAATCTTTCCAAACCGAAAAAACTA
CCACACAAACCTTC
Found at i:34926376 original size:79 final size:79
Alignment explanation
Indices: 34926276--34926423 Score: 269
Period size: 79 Copynumber: 1.9 Consensus size: 79
34926266 CAAGGACATC
* *
34926276 CACAATCCTTCGAAACTAGCAAGTGATCACCGGAATCTTTCCAAACCTATAACACTACCACACAA
1 CACAATCCTTCAAAACTAGCAAGTGATCACCGGAATCTTTCCAAACCTATAAAACTACCACACAA
34926341 ACCTTCAGGATATT
66 ACCTTCAGGATATT
*
34926355 CACAATCTTTCAAAACTAGCAAGTGATCACCGGAATCTTTCCAAACCTATAAAACTACCACACAA
1 CACAATCCTTCAAAACTAGCAAGTGATCACCGGAATCTTTCCAAACCTATAAAACTACCACACAA
34926420 ACCT
66 ACCT
34926424 GTACTTCTCC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.39, C:0.30, G:0.09, T:0.22
Consensus pattern (79 bp):
CACAATCCTTCAAAACTAGCAAGTGATCACCGGAATCTTTCCAAACCTATAAAACTACCACACAA
ACCTTCAGGATATT
Found at i:34934939 original size:27 final size:28
Alignment explanation
Indices: 34934882--34934940 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
34934872 CCACCCACAG
34934882 CTTCCAAATCTTTCATCCTTTGTCATTT
1 CTTCCAAATCTTTCATCCTTTGTCATTT
34934910 CTTCCAAATCTTTCATCC-TTGTCATTT
1 CTTCCAAATCTTTCATCCTTTGTCATTT
34934937 CTTC
1 CTTC
34934941 TTCAGGCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.17, C:0.31, G:0.03, T:0.49
Consensus pattern (28 bp):
CTTCCAAATCTTTCATCCTTTGTCATTT
Found at i:34943089 original size:41 final size:41
Alignment explanation
Indices: 34943039--34943138 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 41
34943029 AAGTGAATCC
* **
34943039 CTCCGTCCACAAAGATACTTCCCTAATCCCTCCATCCCAAG
1 CTCCATCCACAAAGATACTTAACTAATCCCTCCATCCCAAG
* *
34943080 CTCCATCCACAAAGATACTTAACTAATTCCTCCATTCCAAG
1 CTCCATCCACAAAGATACTTAACTAATCCCTCCATCCCAAG
*
34943121 CGT-CAACCACAAAGATAC
1 C-TCCATCCACAAAGATAC
34943139 GAGATAACAG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 51 0.98
42 1 0.02
ACGTcount: A:0.33, C:0.38, G:0.07, T:0.22
Consensus pattern (41 bp):
CTCCATCCACAAAGATACTTAACTAATCCCTCCATCCCAAG
Found at i:34944321 original size:52 final size:51
Alignment explanation
Indices: 34944249--34944360 Score: 179
Period size: 52 Copynumber: 2.2 Consensus size: 51
34944239 CAAAATTGAC
34944249 AATCCAAGAGACCCAGATCAAACAAACTACAAAAAGATAGTGGAAGCAAAAA
1 AATCCAAGAGACCCAGATCAAACAAACTACAAAAAGATAGTGGAAGC-AAAA
* * *
34944301 AATCCAAGAGACCCTGATCAAACAAACTATAAAAAGATATTGGAAGCAAAA
1 AATCCAAGAGACCCAGATCAAACAAACTACAAAAAGATAGTGGAAGCAAAA
*
34944352 ATTCCAAGA
1 AATCCAAGA
34944361 CAATAAAACA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
51 12 0.21
52 44 0.79
ACGTcount: A:0.54, C:0.19, G:0.14, T:0.13
Consensus pattern (51 bp):
AATCCAAGAGACCCAGATCAAACAAACTACAAAAAGATAGTGGAAGCAAAA
Found at i:34949223 original size:157 final size:157
Alignment explanation
Indices: 34948937--34949246 Score: 476
Period size: 157 Copynumber: 2.0 Consensus size: 157
34948927 AAAAAAAGGT
* *
34948937 TAGAGTTAGATGTACTATCATCGTCACAACGGATCAACGCCAACAAAATCACAAGATCACCGTCC
1 TAGAGTTAGATGTACGATCATCATCACAACGGATCAACGCCAACAAAATCACAAGATCACCGTCC
* * *
34949002 ATTCCAAGAACAGCCAACCTACGAAACACAAAATCCGAGATTTAACCGATTTCTATCACAATTTC
66 ATTCCAAGAACAGCCAACCTACGAAACACAAAATCCGACATTCAACCGATTTCAATCACAATTTC
34949067 GATAAATCTAACAAGAAAGATCTGAGA
131 GATAAATCTAACAAGAAAGATCTGAGA
* ** * *
34949094 TAGAGTTAGATGTACGATCATCATCCCAGGGGATCGACGCCAACAGAATCACAAGATCACCGTCC
1 TAGAGTTAGATGTACGATCATCATCACAACGGATCAACGCCAACAAAATCACAAGATCACCGTCC
* * *
34949159 ATTCCCAGAACAGCCAACCTACGAAACACAAATTCCGACATTCAACCGATTTCAATCACTATTTC
66 ATTCCAAGAACAGCCAACCTACGAAACACAAAATCCGACATTCAACCGATTTCAATCACAATTTC
* * *
34949224 GATAGATCTAATAGGAAAGATCT
131 GATAAATCTAACAAGAAAGATCT
34949247 AAAAACGCAA
Statistics
Matches: 137, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
157 137 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (157 bp):
TAGAGTTAGATGTACGATCATCATCACAACGGATCAACGCCAACAAAATCACAAGATCACCGTCC
ATTCCAAGAACAGCCAACCTACGAAACACAAAATCCGACATTCAACCGATTTCAATCACAATTTC
GATAAATCTAACAAGAAAGATCTGAGA
Found at i:34949874 original size:20 final size:22
Alignment explanation
Indices: 34949849--34949896 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
34949839 TTGTCAGCAA
34949849 TTCTTTTC-TTA-TTCCATTTT
1 TTCTTTTCTTTATTTCCATTTT
*
34949869 TTC-TTTCTTTATTTCCTTTTT
1 TTCTTTTCTTTATTTCCATTTT
34949890 TTCTTTT
1 TTCTTTT
34949897 TTTGTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 6 0.25
21 11 0.46
22 3 0.12
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (22 bp):
TTCTTTTCTTTATTTCCATTTT
Found at i:34949895 original size:8 final size:8
Alignment explanation
Indices: 34949867--34949919 Score: 52
Period size: 9 Copynumber: 6.1 Consensus size: 8
34949857 TTATTCCATT
34949867 TTTTCTTTC
1 TTTT-TTTC
*
34949876 TTTATTTCC
1 TTT-TTTTC
34949885 TTTTTTTC
1 TTTTTTTC
34949893 TTTTTTTGTC
1 -TTTTTT-TC
*
34949903 TCTTTTTC
1 TTTTTTTC
34949911 TTTTTTTC
1 TTTTTTTC
34949919 T
1 T
34949920 CTGCATAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 14 0.38
9 20 0.54
10 3 0.08
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTTC
Found at i:34949909 original size:21 final size:21
Alignment explanation
Indices: 34949849--34949917 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
34949839 TTGTCAGCAA
* *
34949849 TTCTTTTCTTAT-TCCATTTT
1 TTCTTTTTTTATCTCCTTTTT
* *
34949869 TTCTTTCTTTATTTCCTTTTT
1 TTCTTTTTTTATCTCCTTTTT
*
34949890 TTCTTTTTTTGTCT-C--TTT
1 TTCTTTTTTTATCTCCTTTTT
34949908 TTCTTTTTTT
1 TTCTTTTTTT
34949918 CTCTGCATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
18 13 0.31
20 11 0.26
21 18 0.43
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.77
Consensus pattern (21 bp):
TTCTTTTTTTATCTCCTTTTT
Found at i:34951348 original size:8 final size:8
Alignment explanation
Indices: 34951309--34951348 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
34951299 ATTATAAAAA
34951309 TTTTTATT
1 TTTTTATT
*
34951317 TTTTAATT
1 TTTTTATT
*
34951325 TATATTATT
1 T-TTTTATT
34951334 TTTTTATT
1 TTTTTATT
34951342 TTTTTAT
1 TTTTTAT
34951349 ACTATTTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:34952785 original size:9 final size:9
Alignment explanation
Indices: 34952771--34952824 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
34952761 CTAGCCATGG
34952771 AAAGAAGGA
1 AAAGAAGGA
34952780 AAAGAA--A
1 AAAGAAGGA
34952787 ATAA-AA-GA
1 A-AAGAAGGA
34952795 AAAGAAGGA
1 AAAGAAGGA
* *
34952804 GAAGAAAGA
1 AAAGAAGGA
34952813 AAAGAAGGA
1 AAAGAAGGA
34952822 AAA
1 AAA
34952825 AAAGTCTGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 6 0.16
8 6 0.16
9 25 0.68
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (9 bp):
AAAGAAGGA
Found at i:34952801 original size:24 final size:23
Alignment explanation
Indices: 34952771--34952818 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
34952761 CTAGCCATGG
*
34952771 AAAGAAGGAAAAGAAAATAAAAGA
1 AAAGAAGGAAAAG-AAAGAAAAGA
*
34952795 AAAGAAGGAGAAGAAAGAAAAGA
1 AAAGAAGGAAAAGAAAGAAAAGA
34952818 A
1 A
34952819 GGAAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (23 bp):
AAAGAAGGAAAAGAAAGAAAAGA
Found at i:34958725 original size:2 final size:2
Alignment explanation
Indices: 34958639--34958710 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
34958629 CACTTGGAAC
34958639 AT AT AT AT AT AT AT AT 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 AT AT
34958681 AT AT 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
34958711 GTAGACTTAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34959848 original size:12 final size:12
Alignment explanation
Indices: 34959831--34959856 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34959821 TCTTTGATCA
34959831 TATCACTAATTT
1 TATCACTAATTT
34959843 TATCACTAATTT
1 TATCACTAATTT
34959855 TA
1 TA
34959857 CTTTTGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (12 bp):
TATCACTAATTT
Found at i:34967618 original size:6 final size:6
Alignment explanation
Indices: 34967607--34967655 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
34967597 AAGCCTCATC
* * *
34967607 ACCACG ACCACG ACCACG ACCACG ACCACG AACACG AACACG AACACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
34967655 A
1 A
34967656 TCATGATGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.41, C:0.43, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:34967681 original size:9 final size:9
Alignment explanation
Indices: 34967664--34967693 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
34967654 GATCATGATG
34967664 ACCATCACC
1 ACCATCACC
*
34967673 ACCACCACC
1 ACCATCACC
34967682 ACCATCACC
1 ACCATCACC
34967691 ACC
1 ACC
34967694 GCCGCCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.33, C:0.60, G:0.00, T:0.07
Consensus pattern (9 bp):
ACCATCACC
Found at i:34967690 original size:15 final size:15
Alignment explanation
Indices: 34967672--34967706 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34967662 TGACCATCAC
34967672 CACCACCACCACCAT
1 CACCACCACCACCAT
* *
34967687 CACCACCGCCGCCAT
1 CACCACCACCACCAT
34967702 CACCA
1 CACCA
34967707 TGGAGAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.60, G:0.06, T:0.06
Consensus pattern (15 bp):
CACCACCACCACCAT
Found at i:34974617 original size:30 final size:29
Alignment explanation
Indices: 34974581--34974658 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
34974571 AATACTGTAA
*
34974581 AATTATATTCCTAATAATCACATTTTTAAT
1 AATTATATT-CTAATAATCACATTTTCAAT
* * *
34974611 AATTATATATCTAATAATTATATTTTCAGT
1 AATTATAT-TCTAATAATCACATTTTCAAT
*
34974641 AATCATATTTCTAATAAT
1 AATTATA-TTCTAATAAT
34974659 ATACCAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 39 0.95
31 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.47
Consensus pattern (29 bp):
AATTATATTCTAATAATCACATTTTCAAT
Found at i:34974658 original size:15 final size:15
Alignment explanation
Indices: 34974585--34974658 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
34974575 CTGTAAAATT
*
34974585 ATATTCCTAATAATC
1 ATATTTCTAATAATC
* * *
34974600 ACATTTTTAATAATT
1 ATATTTCTAATAATC
* *
34974615 ATATATCTAATAATT
1 ATATTTCTAATAATC
*
34974630 ATATTT-TCAGTAATC
1 ATATTTCT-AATAATC
34974645 ATATTTCTAATAAT
1 ATATTTCTAATAAT
34974659 ATACCAAATG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
14 1 0.02
15 44 0.96
16 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.01, T:0.47
Consensus pattern (15 bp):
ATATTTCTAATAATC
Found at i:34993150 original size:72 final size:72
Alignment explanation
Indices: 34993073--34993316 Score: 269
Period size: 72 Copynumber: 3.3 Consensus size: 72
34993063 AATCCAGTGC
* * * * *
34993073 TGAAG-CAAAGGCAAAGACGGATGGTAAGAATGAAGGTGACAATATGCCTGAGGGTCAGGGAGAA
1 TGAAGCCAAAGG-AAAGACGGATGGTAAGAATGAAGGTGATAATGTGCATAAGGGTCAGGAAGAA
34993137 TCAAATGT
65 TCAAATGT
* *
34993145 TGAAGCCAAAGGAAAGATGGATGGTGAA-AATGAAGGTGATAATGTGCATAATAAGAGTCAGGAA
1 TGAAGCCAAAGGAAAGACGGATGGT-AAGAATGAAGGTGATAATGTGC---ATAAGGGTCAGGAA
*
34993209 GAATCCAATGT
62 GAATCAAATGT
* * * * * *
34993220 TGAAGCCAAAGGAAAGATGGATGGTGAGACA-GAAGGTGATAACGTGCATAAGGATCATGAAAAA
1 TGAAGCCAAAGGAAAGACGGATGGTAAGA-ATGAAGGTGATAATGTGCATAAGGGTCAGGAAGAA
34993284 TCAAATGT
65 TCAAATGT
* *
34993292 TGAAGCCAAAGGAAAGGCAGATGGT
1 TGAAGCCAAAGGAAAGACGGATGGT
34993317 GGGAAAAAGG
Statistics
Matches: 147, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
72 76 0.52
73 8 0.05
74 1 0.01
75 61 0.41
76 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.31, T:0.18
Consensus pattern (72 bp):
TGAAGCCAAAGGAAAGACGGATGGTAAGAATGAAGGTGATAATGTGCATAAGGGTCAGGAAGAAT
CAAATGT
Found at i:34993317 original size:72 final size:75
Alignment explanation
Indices: 34993126--34993307 Score: 255
Period size: 75 Copynumber: 2.5 Consensus size: 75
34993116 ATGCCTGAGG
* * *
34993126 GTCAGGGAGAATCAAATGTTGAAGCCAAAGGAAAGATGGATGGTGAAAATGAAGGTGATAATGTG
1 GTCAGGAAAAATCAAATGTTGAAGCCAAAGGAAAGATGGATGGTGAAAATGAAGGTGATAACGTG
34993191 CATAATAAGA
66 CATAATAAGA
* * *
34993201 GTCAGGAAGAATCCAATGTTGAAGCCAAAGGAAAGATGGATGGTGAGACA-GAAGGTGATAACGT
1 GTCAGGAAAAATCAAATGTTGAAGCCAAAGGAAAGATGGATGGTGA-AAATGAAGGTGATAACGT
*
34993265 GCAT-A-AGGA
65 GCATAATAAGA
*
34993274 -TCATGAAAAATCAAATGTTGAAGCCAAAGGAAAG
1 GTCAGGAAAAATCAAATGTTGAAGCCAAAGGAAAG
34993308 GCAGATGGTG
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
72 31 0.32
73 3 0.03
74 1 0.01
75 61 0.62
76 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.30, T:0.18
Consensus pattern (75 bp):
GTCAGGAAAAATCAAATGTTGAAGCCAAAGGAAAGATGGATGGTGAAAATGAAGGTGATAACGTG
CATAATAAGA
Found at i:34993683 original size:33 final size:33
Alignment explanation
Indices: 34993646--34993713 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
34993636 GTTGCAAGTT
* *
34993646 TCTAACAATGGAAAAGAGTATGAATATTTACTA
1 TCTAACAATGGAAAAAAGTATGAATAGTTACTA
34993679 TCTAACAATGGAAAAAAGTATGAATAGTTACTA
1 TCTAACAATGGAAAAAAGTATGAATAGTTACTA
34993712 TC
1 TC
34993714 GATGATGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (33 bp):
TCTAACAATGGAAAAAAGTATGAATAGTTACTA
Found at i:35006016 original size:2 final size:2
Alignment explanation
Indices: 35006009--35006033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35005999 AAATGGTAGA
35006009 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
35006034 ACCCTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35007892 original size:2 final size:2
Alignment explanation
Indices: 35007885--35007935 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
35007875 TTCCATATTA
35007885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35007926 AT AT AT -T AT A
1 AT AT AT AT AT A
35007936 ATCACACTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35017568 original size:2 final size:2
Alignment explanation
Indices: 35017563--35017590 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35017553 GTACTTTTTA
35017563 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
35017591 ATCCATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:35022318 original size:12 final size:12
Alignment explanation
Indices: 35022301--35022325 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35022291 AGATTCAGAA
35022301 AACCCCTTCAAT
1 AACCCCTTCAAT
35022313 AACCCCTTCAAT
1 AACCCCTTCAAT
35022325 A
1 A
35022326 CCTTTATACA
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:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (12 bp):
AACCCCTTCAAT
Found at i:35027699 original size:14 final size:14
Alignment explanation
Indices: 35027680--35027726 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
35027670 ACTAATTTTT
35027680 TATATATTTATATA
1 TATATATTTATATA
* *
35027694 TATATAGTCATATA
1 TATATATTTATATA
*
35027708 TATAATATTT-TTTA
1 TAT-ATATTTATATA
35027722 TATAT
1 TATAT
35027727 TAAGAAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 2 0.07
14 21 0.78
15 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (14 bp):
TATATATTTATATA
Found at i:35028006 original size:2 final size:2
Alignment explanation
Indices: 35027999--35028054 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
35027989 AATAATATGA
*
35027999 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
35028039 AT -T AT AC AT AC AT AT A
1 AT AT AT AT AT AT AT AT A
35028055 CATAAGCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:35028825 original size:22 final size:23
Alignment explanation
Indices: 35028791--35028839 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
35028781 TAAAAAAGTT
*
35028791 AAAATATTTTAT-AT-TAATTTAA
1 AAAATATTATATAATATAA-TTAA
*
35028813 AAATTATTATATAATATAATTAA
1 AAAATATTATATAATATAATTAA
35028836 AAAA
1 AAAA
35028840 AATAAAGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.45
23 9 0.41
24 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATATTATATAATATAATTAA
Found at i:35033621 original size:3 final size:3
Alignment explanation
Indices: 35033608--35033638 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
35033598 CACATACAAG
*
35033608 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
35033639 CAATTTCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:35034100 original size:42 final size:42
Alignment explanation
Indices: 35034053--35034137 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
35034043 ATGGCAACCT
35034053 CATTAACAGCAGAAGCCGCTGCACTCATATCTGCCCCACCAC
1 CATTAACAGCAGAAGCCGCTGCACTCATATCTGCCCCACCAC
* *
35034095 CATTAATAGCAGAAGCCGCTGCACTCATATCTGCCCCCCCAC
1 CATTAACAGCAGAAGCCGCTGCACTCATATCTGCCCCACCAC
35034137 C
1 C
35034138 GATGGTTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.41, G:0.14, T:0.18
Consensus pattern (42 bp):
CATTAACAGCAGAAGCCGCTGCACTCATATCTGCCCCACCAC
Found at i:35034629 original size:16 final size:18
Alignment explanation
Indices: 35034608--35034649 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
35034598 AGGCAGGAGG
*
35034608 AAGAGGGAAGTGA-AA-A
1 AAGAGGGAAATGATAAGA
35034624 AAGA-GGAAATGATAAGA
1 AAGAGGGAAATGATAAGA
35034641 AAGAGGGAA
1 AAGAGGGAA
35034650 CCGTGGCCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 5 0.23
18 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.07
Consensus pattern (18 bp):
AAGAGGGAAATGATAAGA
Found at i:35041424 original size:28 final size:28
Alignment explanation
Indices: 35041391--35041467 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
35041381 AATTCTCCTG
* *
35041391 CCTAAAGAGTAGGGTTCGAATCTCTTTA
1 CCTAAAAAGTAGGGTTCGAATCTCCTTA
*
35041419 TCTAAAAAGTA-GGTTCGAATCTCCTTA
1 CCTAAAAAGTAGGGTTCGAATCTCCTTA
**
35041446 CCTAAAAAGTAGAATTCGAATC
1 CCTAAAAAGTAGGGTTCGAATC
35041468 CCTCATCCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (28 bp):
CCTAAAAAGTAGGGTTCGAATCTCCTTA
Found at i:35045114 original size:21 final size:21
Alignment explanation
Indices: 35045090--35045151 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
35045080 TTCAAAGCCA
35045090 AAAAAAAGAATGATAAAAAAT
1 AAAAAAAGAATGATAAAAAAT
* **
35045111 AAAAATAG--T-A-AAANCA-
1 AAAAAAAGAATGATAAAAAAT
35045127 AAAAAAAGAATGATAAAAAAT
1 AAAAAAAGAATGATAAAAAAT
35045148 AAAA
1 AAAA
35045152 TGTAAAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 7 0.23
17 4 0.13
18 2 0.07
19 2 0.07
20 4 0.13
21 11 0.37
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.13
Consensus pattern (21 bp):
AAAAAAAGAATGATAAAAAAT
Found at i:35045136 original size:37 final size:34
Alignment explanation
Indices: 35045088--35045163 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 34
35045078 TTTTCAAAGC
35045088 CAAAAAAAAGAATGATAAAAAATAAAAATAGTAAAA
1 CAAAAAAAAGAATGATAAAAAAT-AAAAT-GTAAAA
35045124 NCAAAAAAAAGAATGATAAAAAATAAAATGTAAAA
1 -CAAAAAAAAGAATGATAAAAAATAAAATGTAAAA
35045159 CAAAA
1 CAAAA
35045164 TAGAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
34 5 0.13
35 6 0.15
36 5 0.13
37 23 0.59
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.13
Consensus pattern (34 bp):
CAAAAAAAAGAATGATAAAAAATAAAATGTAAAA
Found at i:35045440 original size:20 final size:20
Alignment explanation
Indices: 35045415--35045463 Score: 91
Period size: 19 Copynumber: 2.5 Consensus size: 20
35045405 TAAAATTTTA
35045415 TTTTAAAAAAAAAGTTATTT
1 TTTTAAAAAAAAAGTTATTT
35045435 TTTT-AAAAAAAAGTTATTT
1 TTTTAAAAAAAAAGTTATTT
35045454 TTTTAAAAAA
1 TTTTAAAAAA
35045464 TTTTAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TTTTAAAAAAAAAGTTATTT
Found at i:35045524 original size:15 final size:17
Alignment explanation
Indices: 35045498--35045530 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
35045488 ATTTCTACTT
35045498 TTAAAAAGTAAA-TAAG
1 TTAAAAAGTAAATTAAG
35045514 TTAAAAA-TAAATTAAG
1 TTAAAAAGTAAATTAAG
35045530 T
1 T
35045531 CAAACAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
TTAAAAAGTAAATTAAG
Found at i:35047878 original size:18 final size:16
Alignment explanation
Indices: 35047857--35047890 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
35047847 TCTTTTTTCA
35047857 ATTTATAATATTATTTTT
1 ATTTAT-ATATT-TTTTT
35047875 ATTTATATATTTTTTT
1 ATTTATATATTTTTTT
35047891 GTTTCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTATATATTTTTTT
Found at i:35052007 original size:24 final size:25
Alignment explanation
Indices: 35051973--35052025 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
35051963 AATTCAAAAT
35051973 AAAAATATAAA-AATTTAATTAATTA
1 AAAAATATAAATAATTTAA-TAATTA
* *
35051998 AAAAAT-TAAATATTTTAATAATTT
1 AAAAATATAAATAATTTAATAATTA
35052022 AAAA
1 AAAA
35052026 TTTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAAATATAAATAATTTAATAATTA
Found at i:35052585 original size:29 final size:27
Alignment explanation
Indices: 35052545--35052626 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 27
35052535 ATTTAAAAAT
35052545 TTTAAATAAATTTTTATTTTTTATTATA
1 TTTAAATAAATTTTTATTTTTTATTA-A
*
35052573 TTTAAATAAAATTTTAATTTTAATT-TTAA
1 TTTAAAT-AAATTTTTATTTT--TTATTAA
* * *
35052602 ATCAAATAAATTTTTAATTTTTATT
1 TTTAAATAAATTTTTATTTTTTATT
35052627 TTGAATCGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 18 0.40
29 18 0.40
30 3 0.07
31 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTAAATAAATTTTTATTTTTTATTAA
Found at i:35052627 original size:29 final size:29
Alignment explanation
Indices: 35052548--35052676 Score: 152
Period size: 29 Copynumber: 4.4 Consensus size: 29
35052538 TAAAAATTTT
* * * * *
35052548 AAATAAATTTTTATTTTTTATTAT-ATTT
1 AAATAAATTTTTAATTTTAATTTTAAATC
*
35052576 AAATAAAATTTTAATTTTAATTTTAAATC
1 AAATAAATTTTTAATTTTAATTTTAAATC
* *
35052605 AAATAAATTTTTAATTTTTATTTTGAATC
1 AAATAAATTTTTAATTTTAATTTTAAATC
* *
35052634 GAATAAATTTTTATATTTTAATTTTAAGTC
1 AAATAAATTTTTA-ATTTTAATTTTAAATC
35052664 AAATAAATTTTTA
1 AAATAAATTTTTA
35052677 TAAATGTTAC
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 20 0.24
29 40 0.47
30 25 0.29
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
AAATAAATTTTTAATTTTAATTTTAAATC
Found at i:35052674 original size:59 final size:57
Alignment explanation
Indices: 35052548--35052676 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 57
35052538 TAAAAATTTT
* * *
35052548 AAATAAATTTTTATTTTTTATTATATTTAAATAAAATTTTAATTTTAATTTTAAATC
1 AAATAAATTTTTAATTTTTATTATAATCAAATAAAATTTTAATTTTAATTTTAAATC
* * * *
35052605 AAATAAATTTTTAATTTTTATTTTGAATCGAATAAATTTTTATATTTTAATTTTAAGTC
1 AAATAAATTTTTAATTTTTATTAT-AATCAAATAAAATTTTA-ATTTTAATTTTAAATC
35052664 AAATAAATTTTTA
1 AAATAAATTTTTA
35052677 TAAATGTTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 22 0.35
58 13 0.21
59 28 0.44
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (57 bp):
AAATAAATTTTTAATTTTTATTATAATCAAATAAAATTTTAATTTTAATTTTAAATC
Found at i:35052955 original size:18 final size:18
Alignment explanation
Indices: 35052934--35052977 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
35052924 AAAAAAATAA
35052934 AATTTTTAAATAATT-TAT
1 AATTTTTAAAT-ATTATAT
*
35052952 AATTTTTTAATATTATAT
1 AATTTTTAAATATTATAT
*
35052970 CATTTTTA
1 AATTTTTA
35052978 TTTTTCTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTTAAATATTATAT
Found at i:35061276 original size:169 final size:169
Alignment explanation
Indices: 35060992--35061321 Score: 561
Period size: 169 Copynumber: 2.0 Consensus size: 169
35060982 ATATTCAACT
*
35060992 TAAATGGGATTTTAATAAAGTAAAAGAAAAAGATATAATTAATTAACCATTAATCTTTTGACTTA
1 TAAATGGGATTTTAATAAAGTAAAAGAAAAAGATATAATTAATTAACCATTAATCTTTTAACTTA
*
35061057 GTGGTGATTATAGTAAGTAATGCTTTTCCATCTTAGTATTTTAACTTTTTGAATTCCTAACCCTT
66 GTGGTGATTATAATAAGTAATGCTTTTCCATCTTAGTATTTTAACTTTTTGAATTCCTAACCCTT
*
35061122 TCTCCCAATGGATAAATAAAACCAAGAAAAATGTAAACG
131 TCACCCAATGGATAAATAAAACCAAGAAAAATGTAAACG
* * * *
35061161 TAAATGGGATTTTAATAAAGTAAGAGAAAAAGATATAATTTATTAAGCATTAATCTTTTAATTTA
1 TAAATGGGATTTTAATAAAGTAAAAGAAAAAGATATAATTAATTAACCATTAATCTTTTAACTTA
* * * *
35061226 GTGGTGATTATAATAAGTACTGCTTTTCCATGTTATTATTTTACCTTTTTGAATTCCTAACCCTT
66 GTGGTGATTATAATAAGTAATGCTTTTCCATCTTAGTATTTTAACTTTTTGAATTCCTAACCCTT
35061291 TCACCCAATGGATAAATAAAACCAAGAAAAA
131 TCACCCAATGGATAAATAAAACCAAGAAAAA
35061322 GGTCAAGTTA
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
169 150 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (169 bp):
TAAATGGGATTTTAATAAAGTAAAAGAAAAAGATATAATTAATTAACCATTAATCTTTTAACTTA
GTGGTGATTATAATAAGTAATGCTTTTCCATCTTAGTATTTTAACTTTTTGAATTCCTAACCCTT
TCACCCAATGGATAAATAAAACCAAGAAAAATGTAAACG
Found at i:35078046 original size:21 final size:22
Alignment explanation
Indices: 35078022--35078090 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 22
35078012 AAAAGCTGAA
*
35078022 AATGTTATATGATCA-TATTAT
1 AATGTTATATAATCATTATTAT
*
35078043 AATGTTATATAATTATTTATTAT
1 AATGTTATATAATCA-TTATTAT
* *
35078066 AATGTTATATCATTATTTATTAT
1 AATGTTATATAATCA-TTATTAT
35078089 AA
1 AA
35078091 CATATTAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 13 0.30
23 30 0.70
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (22 bp):
AATGTTATATAATCATTATTAT
Found at i:35078063 original size:23 final size:23
Alignment explanation
Indices: 35078037--35078090 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
35078027 TATATGATCA
35078037 TATTATAATGTTATATAATTATT
1 TATTATAATGTTATATAATTATT
*
35078060 TATTATAATGTTATATCATTATT
1 TATTATAATGTTATATAATTATT
35078083 TATTATAA
1 TATTATAA
35078091 CATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTATAATGTTATATAATTATT
Found at i:35085777 original size:3 final size:3
Alignment explanation
Indices: 35085769--35085806 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
35085759 ATAGCCACAT
*
35085769 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG GAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
35085807 AGGAAATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.32, G:0.34, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:35094267 original size:6 final size:6
Alignment explanation
Indices: 35094260--35094294 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
35094250 AACAAAATCT
*
35094260 TTTCCT TTTCCA TTTCCA TTTCCA TTTCCA TTTCC
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCC
35094295 TATCTCCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.11, C:0.34, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTCCA
Found at i:35115221 original size:7 final size:8
Alignment explanation
Indices: 35115204--35115229 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
35115194 ATTAAAAACA
35115204 TTTTTATT
1 TTTTTATT
35115212 TTTTTATT
1 TTTTTATT
35115220 TTTTTATT
1 TTTTTATT
35115228 TT
1 TT
35115230 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:35115267 original size:2 final size:2
Alignment explanation
Indices: 35115260--35115289 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
35115250 TATAATTTAA
35115260 AT AT 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
35115290 TTCGTGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35115414 original size:21 final size:20
Alignment explanation
Indices: 35115389--35115490 Score: 69
Period size: 17 Copynumber: 5.4 Consensus size: 20
35115379 GAAAAAATTT
35115389 AAAATATAATATATAATATA
1 AAAATATAATATATAATATA
* *
35115409 AAAA-ATTATATTTTAA-ATA
1 AAAATATAATA-TATAATATA
*
35115428 TAAAA-ATAA-A-GT-ATATA
1 -AAAATATAATATATAATATA
*
35115445 AAATTATAATA-A-AA-ATA
1 AAAATATAATATATAATATA
*
35115462 AAAATAAAATATATAATATTA
1 AAAATATAATATATAATA-TA
35115483 AAAATATA
1 AAAATATA
35115491 TTTAAAAGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
16 4 0.06
17 20 0.32
18 3 0.05
19 11 0.17
20 16 0.25
21 9 0.14
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAATATAATATATAATATA
Found at i:35115456 original size:26 final size:24
Alignment explanation
Indices: 35115427--35115479 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
35115417 TATTTTAAAT
*
35115427 ATAAAAATAAAGTATATAAA-ATTATA
1 ATAAAAATAAA-AATA-AAATA-TATA
35115453 ATAAAAATAAAAATAAAATATATA
1 ATAAAAATAAAAATAAAATATATA
35115477 ATA
1 ATA
35115480 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 10 0.40
25 4 0.16
26 11 0.44
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAAAAATAAAAATAAAATATATA
Found at i:35115468 original size:32 final size:32
Alignment explanation
Indices: 35115389--35115482 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 32
35115379 GAAAAAATTT
* * * *
35115389 AAAATATAATATATAATATAAAAAATTATATTTTA
1 AAAATA-AAAATAAAATATATAAAATTATA--ATA
* *
35115424 AATATAAAAATAAAGTATATAAAATTATAATA
1 AAAATAAAAATAAAATATATAAAATTATAATA
*
35115456 AAAATAAAAATAAAATATATAATATTA
1 AAAATAAAAATAAAATATATAAAATTA
35115483 AAAATATATT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
32 26 0.52
34 19 0.38
35 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (32 bp):
AAAATAAAAATAAAATATATAAAATTATAATA
Found at i:35115477 original size:15 final size:14
Alignment explanation
Indices: 35115423--35115490 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 14
35115413 ATTATATTTT
35115423 AAATATAAAAATAA
1 AAATATAAAAATAA
*
35115437 AGTATATAAAATTATAA
1 A-AATATAAAA--ATAA
*
35115454 TAAAAATAAAAATAA
1 -AAATATAAAAATAA
* *
35115469 AATATATAATATTAA
1 AA-ATATAAAAATAA
35115484 AAATATA
1 AAATATA
35115491 TTTAAAAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.19
15 23 0.53
17 11 0.26
18 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (14 bp):
AAATATAAAAATAA
Found at i:35115860 original size:14 final size:14
Alignment explanation
Indices: 35115833--35115888 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
35115823 ATAAAAAAAT
35115833 ATTACAAACAAATAA
1 ATTAC-AACAAATAA
*
35115848 ATTACACCAAATATA
1 ATTACAACAAATA-A
*
35115863 AATA-AACAAATAA
1 ATTACAACAAATAA
*
35115876 ATTACATCAAATA
1 ATTACAACAAATA
35115889 TAAATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 4 0.12
14 21 0.62
15 9 0.26
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.23
Consensus pattern (14 bp):
ATTACAACAAATAA
Found at i:35115865 original size:16 final size:16
Alignment explanation
Indices: 35115844--35115893 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
35115834 TTACAAACAA
*
35115844 ATAAATTACACCAAAT
1 ATAAATTACAACAAAT
35115860 ATAAA-TA-AAC-AA-
1 ATAAATTACAACAAAT
*
35115872 ATAAATTACATCAAAT
1 ATAAATTACAACAAAT
35115888 ATAAAT
1 ATAAAT
35115894 AAAATTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 5 0.18
13 4 0.14
14 4 0.14
15 4 0.14
16 11 0.39
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAATTACAACAAAT
Found at i:35115871 original size:28 final size:28
Alignment explanation
Indices: 35115838--35115896 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
35115828 AAAATATTAC
35115838 AAACAAATAAATTACACCAAATATAAAT
1 AAACAAATAAATTACACCAAATATAAAT
*
35115866 AAACAAATAAATTACATCAAATATAAAT
1 AAACAAATAAATTACACCAAATATAAAT
35115894 AAA
1 AAA
35115897 ATTTCAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (28 bp):
AAACAAATAAATTACACCAAATATAAAT
Found at i:35115891 original size:24 final size:27
Alignment explanation
Indices: 35115829--35115896 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 27
35115819 AATAATAAAA
* *
35115829 AAATATTACAAACAAATAAATTACACC
1 AAATATAATAAACAAATAAATTACACC
*
35115856 AAATATAAATAAACAAATAAATTACATC
1 AAATAT-AATAAACAAATAAATTACACC
35115884 AAATATAAATAAA
1 AAATAT-AATAAA
35115897 ATTTCAATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 6 0.16
28 31 0.84
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (27 bp):
AAATATAATAAACAAATAAATTACACC
Found at i:35125741 original size:27 final size:28
Alignment explanation
Indices: 35125705--35125931 Score: 115
Period size: 27 Copynumber: 8.3 Consensus size: 28
35125695 TGTTATAGTT
* * *
35125705 ATGTTGAAAAATATAATTATCACATGTC
1 ATGTTAAAAAATTTAATTATTACATGTC
* * **
35125733 ATGTT-AAAATTTTAGTTATTACACATC
1 ATGTTAAAAAATTTAATTATTACATGTC
*
35125760 ATGTTAAAAAATGTAATTATTACATGTC
1 ATGTTAAAAAATTTAATTATTACATGTC
* * ** * *
35125788 ATGTT-GAAGATTTAATTATTTTACGTT
1 ATGTTAAAAAATTTAATTATTACATGTC
* * * * *
35125815 ATGTT-GAAAATTTAGTTGTTATACGTC
1 ATGTTAAAAAATTTAATTATTACATGTC
* * * *
35125842 ATATTGAAAAATATAA-TGTTACATG-C
1 ATGTTAAAAAATTTAATTATTACATGTC
* * * *
35125868 AAGGTT-GAAAAGTTAGTTATTACATGTC
1 -ATGTTAAAAAATTTAATTATTACATGTC
* * * **
35125896 ATTTTAAAAAATGTAGTTATTACACATC
1 ATGTTAAAAAATTTAATTATTACATGTC
35125924 ATGTTAAA
1 ATGTTAAA
35125932 TAGTTGGTTA
Statistics
Matches: 149, Mismatches: 44, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
26 7 0.05
27 83 0.56
28 59 0.40
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (28 bp):
ATGTTAAAAAATTTAATTATTACATGTC
Found at i:35125819 original size:55 final size:55
Alignment explanation
Indices: 35125658--35125824 Score: 178
Period size: 55 Copynumber: 3.1 Consensus size: 55
35125648 CATCATGCTA
* * * * *
35125658 AAAAATAT-AGTATTATATGTCATATTGAAAATTTATTTGTTATA-GTTATGTTG
1 AAAAATATAATTATTACATGTCATGTTGAAAATTTAATTATTATACGTTATGTTG
* * * * * *
35125711 AAAAATATAATTATCACATGTCATGTT-AAAATTTTAGTTATTACACATCATGTTA
1 AAAAATATAATTATTACATGTCATGTTGAAAA-TTTAATTATTATACGTTATGTTG
* * *
35125766 AAAAATGTAATTATTACATGTCATGTTGAAGATTTAATTATTTTACGTTATGTTG
1 AAAAATATAATTATTACATGTCATGTTGAAAATTTAATTATTATACGTTATGTTG
35125821 AAAA
1 AAAA
35125825 TTTAGTTGTT
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
53 12 0.13
54 24 0.26
55 52 0.57
56 3 0.03
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (55 bp):
AAAAATATAATTATTACATGTCATGTTGAAAATTTAATTATTATACGTTATGTTG
Found at i:35125819 original size:82 final size:81
Alignment explanation
Indices: 35125707--35125931 Score: 209
Period size: 82 Copynumber: 2.7 Consensus size: 81
35125697 TTATAGTTAT
* * * *
35125707 GTTGAAAAATATAATTATCACATGTCATGTTAAAATTTTAGTTATTACACATCATGTTAAAAAAT
1 GTTGAAAAGT-TAATTATTACACGTCATGTTAAAAATTTAGTTATTACACATCATGTTAAAAAAT
* *
35125772 GTAATTATTACATGTC-AT
65 ATAA-TATTACATG-CAAG
* * ** * * * * * * *
35125790 GTTGAAGATTTAATTATTTTACGTTATGTTGAAAATTTAGTTGTTATACGTCATATTGAAAAATA
1 GTTGAAAAGTTAATTATTACACGTCATGTTAAAAATTTAGTTATTACACATCATGTTAAAAAATA
*
35125855 TAATGTTACATGCAAG
66 TAATATTACATGCAAG
* * * *
35125871 GTTGAAAAGTTAGTTATTACATGTCATTTTAAAAAATGTAGTTATTACACATCATGTTAAA
1 GTTGAAAAGTTAATTATTACACGTCATGTT-AAAAATTTAGTTATTACACATCATGTTAAA
35125932 TAGTTGGTTA
Statistics
Matches: 108, Mismatches: 32, Indels: 5
0.74 0.22 0.03
Matches are distributed among these distances:
80 1 0.01
81 31 0.29
82 68 0.63
83 8 0.07
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (81 bp):
GTTGAAAAGTTAATTATTACACGTCATGTTAAAAATTTAGTTATTACACATCATGTTAAAAAATA
TAATATTACATGCAAG
Found at i:35125866 original size:136 final size:136
Alignment explanation
Indices: 35125682--35125928 Score: 331
Period size: 136 Copynumber: 1.8 Consensus size: 136
35125672 ATATGTCATA
* * * * *
35125682 TTGAAAATTTATTTGTTATAGTTATGTTGAAAAATATAATTATCACATGTC-ATGTT-AAAATTT
1 TTGAAAATTTAGTTGTTATAGTCATATTGAAAAATATAATTATCACATG-CAAGGTTGAAAA-GT
**
35125745 TAGTTATTACACATCATGTTAAAAAATGTAATTATTACATGTCATGTTGAAGATTTAATTATTTT
64 TAGTTATTACACATCATGTTAAAAAATGTAATTATTACACATCATGTTGAAGATTTAATTATTTT
35125810 ACGTTATG
129 ACGTTATG
35125818 TTGAAAATTTAGTTGTTATACGTCATATTGAAAAATATAATGT-T-ACATGCAAGGTTGAAAAGT
1 TTGAAAATTTAGTTGTTATA-GTCATATTGAAAAATATAAT-TATCACATGCAAGGTTGAAAAGT
** * *
35125881 TAGTTATTACATGTCATTTTAAAAAATGTAGTTATTACACATCATGTT
64 TAGTTATTACACATCATGTTAAAAAATGTAATTATTACACATCATGTT
35125929 AAATAGTTGG
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
135 1 0.01
136 71 0.74
137 23 0.24
138 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (136 bp):
TTGAAAATTTAGTTGTTATAGTCATATTGAAAAATATAATTATCACATGCAAGGTTGAAAAGTTA
GTTATTACACATCATGTTAAAAAATGTAATTATTACACATCATGTTGAAGATTTAATTATTTTAC
GTTATG
Found at i:35139423 original size:18 final size:18
Alignment explanation
Indices: 35139400--35139439 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35139390 ATACAATTAC
* *
35139400 TTAATCATGTTATCGTAT
1 TTAATCATATTATCATAT
35139418 TTAATCATATTATCATAT
1 TTAATCATATTATCATAT
35139436 TTAA
1 TTAA
35139440 ATACGTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (18 bp):
TTAATCATATTATCATAT
Found at i:35139628 original size:20 final size:20
Alignment explanation
Indices: 35139605--35139642 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35139595 GATTATTTGA
*
35139605 TGTTATTATTATTTTTATTT
1 TGTTATAATTATTTTTATTT
35139625 TGTTATAATTATTTTTAT
1 TGTTATAATTATTTTTAT
35139643 AATTATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TGTTATAATTATTTTTATTT
Found at i:35166039 original size:58 final size:58
Alignment explanation
Indices: 35165955--35166072 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
35165945 TTTCCCAAAT
*
35165955 CAGATAAAACCATAAAACACAGCATCTTCGACCTTTCATCTCTCTCCCCAAAAACCCA
1 CAGATAAAACCATAAAACACAACATCTTCGACCTTTCATCTCTCTCCCCAAAAACCCA
* * *
35166013 CAGATAAAATCATAAAACCCAACATCTTCGATCTTTCATCTCTCTCCCCAAAAACCCA
1 CAGATAAAACCATAAAACACAACATCTTCGACCTTTCATCTCTCTCCCCAAAAACCCA
35166071 CA
1 CA
35166073 ATCAATTGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.38, C:0.36, G:0.04, T:0.22
Consensus pattern (58 bp):
CAGATAAAACCATAAAACACAACATCTTCGACCTTTCATCTCTCTCCCCAAAAACCCA
Found at i:35173185 original size:26 final size:26
Alignment explanation
Indices: 35173143--35173195 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
35173133 TTTTCAAAAT
*
35173143 ATATTAAAAGATCAAAACTCTTTAAA
1 ATATTAAAAGATCAAAACTATTTAAA
*
35173169 ATATTATAA-ATCTAAAACTATTTAAA
1 ATATTAAAAGATC-AAAACTATTTAAA
35173195 A
1 A
35173196 ATGTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (26 bp):
ATATTAAAAGATCAAAACTATTTAAA
Found at i:35174498 original size:102 final size:96
Alignment explanation
Indices: 35174341--35174539 Score: 335
Period size: 102 Copynumber: 2.0 Consensus size: 96
35174331 GCTAAGCTGT
*
35174341 CTTCAAAACCTGCTGCAAACGAGTTAAGAAAAACGGAGTCAATGGGAAAGGAGACGGGAACCAAA
1 CTTCAAAACCTGCTGCAAACGAGTTAAGAAAAACGGAGTCAATGAGAAAGGAGACGGG------A
35174406 ACCAAAACCAAAACCACCGAGTTAAACAACCCGGAGC
60 ACCAAAACCAAAACCACCGAGTTAAACAACCCGGAGC
35174443 CTTCAAAACCTGCTGCAAACGAGTTAAGAAAAACGGAGTCAATGAGAAAGGAGACGGGAACCAAA
1 CTTCAAAACCTGCTGCAAACGAGTTAAGAAAAACGGAGTCAATGAGAAAGGAGACGGGAACCAAA
35174508 ACCAAAACCACCGAGTTAAACAACCCGGAGC
66 ACCAAAACCACCGAGTTAAACAACCCGGAGC
35174539 C
1 C
35174540 GCCAGTTCCA
Statistics
Matches: 96, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
96 39 0.41
102 57 0.59
ACGTcount: A:0.44, C:0.25, G:0.22, T:0.10
Consensus pattern (96 bp):
CTTCAAAACCTGCTGCAAACGAGTTAAGAAAAACGGAGTCAATGAGAAAGGAGACGGGAACCAAA
ACCAAAACCACCGAGTTAAACAACCCGGAGC
Found at i:35178721 original size:15 final size:15
Alignment explanation
Indices: 35178703--35178734 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35178693 GTCGCTGTTA
*
35178703 TTGTTATTGTTCTTC
1 TTGTTACTGTTCTTC
35178718 TTGTTACTGTTCTTC
1 TTGTTACTGTTCTTC
35178733 TT
1 TT
35178735 CCCAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.16, G:0.12, T:0.66
Consensus pattern (15 bp):
TTGTTACTGTTCTTC
Found at i:35180681 original size:17 final size:18
Alignment explanation
Indices: 35180659--35180694 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
35180649 CACCTCAAAC
*
35180659 TATTTATCTTTT-TTATT
1 TATTTATATTTTATTATT
35180676 TATTTATATTTTATTATT
1 TATTTATATTTTATTATT
35180694 T
1 T
35180695 TTAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTTATATTTTATTATT
Found at i:35181526 original size:24 final size:22
Alignment explanation
Indices: 35181497--35181552 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
35181487 AGACTTATTT
35181497 AATTTAAAAATAAAAATATATAAA
1 AATTTAAAAATAAAAATA-A-AAA
*
35181521 AATTTAATAAAATATAAATAAAAA
1 AATTT-A-AAAATAAAAATAAAAA
*
35181545 TATTTAAA
1 AATTTAAA
35181553 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
23 1 0.04
24 12 0.43
25 2 0.07
26 11 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTAAAAATAAAAATAAAAA
Found at i:35181544 original size:22 final size:21
Alignment explanation
Indices: 35181505--35181545 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
35181495 TTAATTTAAA
*
35181505 AATAAAAATATATAAAAATTT
1 AATAAAAATAAATAAAAATTT
35181526 AATAAAATATAAATAAAAAT
1 AATAAAA-ATAAATAAAAAT
35181546 ATTTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAAAATAAATAAAAATTT
Found at i:35193945 original size:15 final size:15
Alignment explanation
Indices: 35193925--35193954 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35193915 ACAATTAATT
35193925 TTTCTTTTTTGAGTA
1 TTTCTTTTTTGAGTA
35193940 TTTCTTTTTTGAGTA
1 TTTCTTTTTTGAGTA
35193955 ACTAGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (15 bp):
TTTCTTTTTTGAGTA
Found at i:35201618 original size:2 final size:2
Alignment explanation
Indices: 35201611--35201637 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35201601 TTATTACAAG
35201611 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 T
35201638 TGAAGGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35206783 original size:626 final size:630
Alignment explanation
Indices: 35205605--35206854 Score: 2278
Period size: 626 Copynumber: 2.0 Consensus size: 630
35205595 GATAAAATTG
35205605 ATTAATATATATATATATTATATATTGTGTGTGTGTAAGAGAGATATATTAACTTTAACCCAAAA
1 ATTAATATATATATATATTATATATTGTGTGTGTGTAAGAGAGATATATTAACTTTAACCCAAAA
* * *
35205670 CCTAAAACCCTGTACATATATTTATTGCAACTTATCTCGTATGTGTAGCTTTGGTCCATAGACGA
66 CCTAAAACCCTATACAGATATTTATTGCAACTTATCTCGTATATGTAGCTTTGGTCCATAGACGA
* *
35205735 CAAAACTCAATAATTTAGATTAGCTACGACAGGTGTTTGCCCGTCAATCCGGTCATATTCAGACA
131 CAAAACTCAATAATTTAAATTAGCTACGACAGGCGTTTGCCCGTCAATCCGGTCATATTCAGACA
* *
35205800 AAGAAACCTTTATAAATCAGCCCTTCATACCCACTAACTTTATCATGTTATCATTTTAGTGGACA
196 AAGAAACCTTTATAAATCAGCCCTTCATACCCACTAACTTTATCATGCTATCATTTCAGTGGACA
* *
35205865 TCATTTGTTTTAGTCAATTCAACACTCCAATTAAAGGTTAAGATTTGTCTTAAACTTGACGCCTA
261 ACATTTGTTTTAGTCAATTCAACACTCCAATTAAAGATTAAGATTTGTCTTAAACTTGACGCCTA
35205930 AACCATATGTATCTAGACAATTAATGAACCTGTGCATGAATCCGAAGAAACCTGAAGTAAGGCGG
326 AACCATATGTATCTAGACAATTAATGAACCTGTGCATGAATCCGAAGAAACCTGAAGTAAGGCGG
35205995 TAAGAATATTAGTCATCATTTCAACTGTACAAGAAATAGATAACAAGGCACATCTTTGAAAGCTT
391 TAAGAATATTAGTCATCATTTCAACTGTACAAGAAATAGATAACAAGGCACATCTTTGAAAGCTT
35206060 TTTATTCTAACTTAATTTCTTGAAGAACAAAAGAGATAGAGCTTGATCACGAGGCTTCTTCTGTG
456 TTTATTCTAACTTAATTTCTTGAAGAACAAAAGAGATAGAGCTTGATCACGAGGCTTCTTCTGTG
*
35206125 CTTGCATAGGTCAAGTCTCAGAGGTCGGTACATTTATTGTTTTGGCTTCTAATATGACACATGCA
521 CTTGCATAGGTCAAGTCCCAGAGGTCGGTACATTTATTGTTTTGGCTTCTAATATGACACATGCA
35206190 CATAAATAT-AA-AAATATATATA-AT-TATATATGATATCTTTGT
586 CATAAATATAAATAAATATATATATATATATATAT-ATATCTTTGT
35206232 NATTAATATAT-TATATA-TATATATTGTGTGTGTGTAAGAGAGATATATTAACTTTAACCCAAA
1 -ATTAATATATATATATATTATATATTGTGTGTGTGTAAGAGAGATATATTAACTTTAACCCAAA
*
35206295 ACCTAAAACCCTATACAGATGTTTATTGCAACTTATCTCGTATATGTAGCTTTGGTCCATAGACG
65 ACCTAAAACCCTATACAGATATTTATTGCAACTTATCTCGTATATGTAGCTTTGGTCCATAGACG
* ** * *
35206360 ACAAAACTCAATAATTTAAATTAGTTGTGTCAGGCGTTTGTCCGTCAATCCGGTCATATTCAGAC
130 ACAAAACTCAATAATTTAAATTAGCTACGACAGGCGTTTGCCCGTCAATCCGGTCATATTCAGAC
35206425 AAAGAAACCTTTATAAATCAGCCCTTCATACCCACTAACTTTATCATGCTATCATTTCAGTGGAC
195 AAAGAAACCTTTATAAATCAGCCCTTCATACCCACTAACTTTATCATGCTATCATTTCAGTGGAC
* *
35206490 AACCTTTGTTTTAGTCAATTCAACACTCCAATTAAAGATTAGGATTTGTCTTAAACTTGACGCCT
260 AACATTTGTTTTAGTCAATTCAACACTCCAATTAAAGATTAAGATTTGTCTTAAACTTGACGCCT
35206555 AAACCATATGTATCTAGACAATTAATGAACCTGTGCATGAATCCGAAGAAACCTGAAGTAAGGCG
325 AAACCATATGTATCTAGACAATTAATGAACCTGTGCATGAATCCGAAGAAACCTGAAGTAAGGCG
35206620 GTAAGAATATTAGTCATCATTTCAACTGTACAAGAAATAGATAACAAGGCACATCTTTGAAAGCT
390 GTAAGAATATTAGTCATCATTTCAACTGTACAAGAAATAGATAACAAGGCACATCTTTGAAAGCT
35206685 TTTTATTCTAACTTAATTTCTTGAAGAACAAAAGAGATAGAGCTTGATCACGAGGCTTCTTCTGT
455 TTTTATTCTAACTTAATTTCTTGAAGAACAAAAGAGATAGAGCTTGATCACGAGGCTTCTTCTGT
35206750 GCTTGCATAGGTCAAGTCCCAGAGGTCGGTACATTTATTGTTTTGGCTTCTAATATGACACATGC
520 GCTTGCATAGGTCAAGTCCCAGAGGTCGGTACATTTATTGTTTTGGCTTCTAATATGACACATGC
35206815 ACATAAATATAAATAAATATATATATATATATATATATAT
585 ACATAAATATAAATAAATATATATATATATATATATATAT
35206855 ATATATTGCT
Statistics
Matches: 600, Mismatches: 18, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
626 558 0.93
627 8 0.01
628 21 0.04
629 6 0.01
630 7 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (630 bp):
ATTAATATATATATATATTATATATTGTGTGTGTGTAAGAGAGATATATTAACTTTAACCCAAAA
CCTAAAACCCTATACAGATATTTATTGCAACTTATCTCGTATATGTAGCTTTGGTCCATAGACGA
CAAAACTCAATAATTTAAATTAGCTACGACAGGCGTTTGCCCGTCAATCCGGTCATATTCAGACA
AAGAAACCTTTATAAATCAGCCCTTCATACCCACTAACTTTATCATGCTATCATTTCAGTGGACA
ACATTTGTTTTAGTCAATTCAACACTCCAATTAAAGATTAAGATTTGTCTTAAACTTGACGCCTA
AACCATATGTATCTAGACAATTAATGAACCTGTGCATGAATCCGAAGAAACCTGAAGTAAGGCGG
TAAGAATATTAGTCATCATTTCAACTGTACAAGAAATAGATAACAAGGCACATCTTTGAAAGCTT
TTTATTCTAACTTAATTTCTTGAAGAACAAAAGAGATAGAGCTTGATCACGAGGCTTCTTCTGTG
CTTGCATAGGTCAAGTCCCAGAGGTCGGTACATTTATTGTTTTGGCTTCTAATATGACACATGCA
CATAAATATAAATAAATATATATATATATATATATATATCTTTGT
Found at i:35206838 original size:2 final size:2
Alignment explanation
Indices: 35206821--35206860 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
35206811 ATGCACATAA
* *
35206821 AT AT AA AT AA AT AT 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 AT
35206861 TGCTTTCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:35212807 original size:14 final size:14
Alignment explanation
Indices: 35212788--35212814 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35212778 TTGGTTTTAC
35212788 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
35212802 TTTTAGTTAATTA
1 TTTTAGTTAATTA
35212815 ATTAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:35214627 original size:84 final size:84
Alignment explanation
Indices: 35214512--35214721 Score: 240
Period size: 81 Copynumber: 2.6 Consensus size: 84
35214502 AAATATGGCT
* *
35214512 TATAATAATAATA-TTTTTTCAACATAGCGTGTAATAATAACATTTTTTCAA-CAT-AGTGTGTA
1 TATAATAATAATATTTTTTTCAACATGGCGTGTAATAATAACATTTTTTCAACCATGA-CGTGTA
* *
35214574 ACATGTTTTTGTGCATGACG
65 ACATGTTTTTATACATGACG
* *
35214594 TATAACAATAATATTTTTTTTCAACATGGCGTG---TAATAAC-TTTTTTTAACCATGACGTGTA
1 TATAATAATAATA-TTTTTTTCAACATGGCGTGTAATAATAACATTTTTTCAACCATGACGTGTA
*
35214655 ACATGTTTTTATACATGATG
65 ACATGTTTTTATACATGACG
* * * *
35214675 TGTAATAACAATATTTTTTT--ACATGACGTGTAATAATAATATTTTTT
1 TATAATAATAATATTTTTTTCAACATGGCGTGTAATAATAACATTTTTT
35214722 TTCATCATGC
Statistics
Matches: 108, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
78 9 0.08
80 15 0.14
81 48 0.44
82 19 0.18
84 17 0.16
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (84 bp):
TATAATAATAATATTTTTTTCAACATGGCGTGTAATAATAACATTTTTTCAACCATGACGTGTAA
CATGTTTTTATACATGACG
Found at i:35214647 original size:26 final size:25
Alignment explanation
Indices: 35214608--35214764 Score: 104
Period size: 26 Copynumber: 5.8 Consensus size: 25
35214598 ACAATAATAT
*
35214608 TTTTTTTCAACATGGCGTGTAATAAC
1 TTTTTTT-AACATGACGTGTAATAAC
*
35214634 TTTTTTTAACCATGACGTGTAA-CA-
1 TTTTTTTAA-CATGACGTGTAATAAC
* *
35214658 TGTTTTTATACATGATGTGTAATAAC
1 TTTTTTTA-ACATGACGTGTAATAAC
* *
35214684 AATATTTTTTTACATGACGTGTAATAATAATAT
1 --T-TTTTTTAACATGACGTG---TAAT-A-AC
*
35214717 TTTTTTTCATCATG-CAGTGTAATAAC
1 TTTTTTT-AACATGAC-GTGTAATAAC
35214743 TTTTTTTAACCATGACGTGTAA
1 TTTTTTTAA-CATGACGTGTAA
35214765 CATGTTTTTG
Statistics
Matches: 102, Mismatches: 13, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
24 18 0.18
25 6 0.06
26 36 0.35
27 2 0.02
28 14 0.14
29 5 0.05
30 7 0.07
31 12 0.12
32 1 0.01
33 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (25 bp):
TTTTTTTAACATGACGTGTAATAAC
Found at i:35214671 original size:24 final size:25
Alignment explanation
Indices: 35214617--35214712 Score: 70
Period size: 28 Copynumber: 3.7 Consensus size: 25
35214607 TTTTTTTTCA
* * *
35214617 ACATGGCGTGTAATAACTTTTTTTA-
1 ACATGACGTGTAACAA-TATTTTTAT
*
35214642 ACCATGACGTGTAAC-ATGTTTTTAT
1 A-CATGACGTGTAACAATATTTTTAT
* *
35214667 ACATGATGTGTAATAACAATATTTTTTT
1 ACATGACGTG---TAACAATATTTTTAT
*
35214695 ACATGACGTGTAATAATA
1 ACATGACGTGTAACAATA
35214713 ATATTTTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
24 15 0.26
25 10 0.18
26 11 0.19
27 4 0.07
28 17 0.30
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (25 bp):
ACATGACGTGTAACAATATTTTTAT
Found at i:35214737 original size:31 final size:28
Alignment explanation
Indices: 35214514--35214764 Score: 111
Period size: 29 Copynumber: 9.1 Consensus size: 28
35214504 ATATGGCTTA
* *
35214514 TAATAATAATATTTTTTCAACAT-AGCGTG
1 TAATAACAATATTTTTT-TACATGA-CGTG
* * *
35214543 TAATAATAACATTTTTTCAACAT-A-GTG
1 TAATAACAATATTTTTT-TACATGACGTG
* * * * *
35214570 T-GTAAC-ATGTTTTTGTGCATGACGTA
1 TAATAACAATATTTTTTTACATGACGTG
* * *
35214596 TAACAATAATATTTTTTTTCAACATGGCGTG
1 TAATAACAATA-TTTTTTT--ACATGACGTG
*
35214627 TAATAAC--T-TTTTTTAACCATGACGTG
1 TAATAACAATATTTTTTTA-CATGACGTG
* * *
35214653 ---TAAC-ATGTTTTTATACATGATGTG
1 TAATAACAATATTTTTTTACATGACGTG
35214677 TAATAACAATATTTTTTTACATGACGTG
1 TAATAACAATATTTTTTTACATGACGTG
*
35214705 TAATAATAATATTTTTTTTCATCATG-CAGTG
1 TAATAACAATA-TTTTTTT-A-CATGAC-GTG
*
35214736 TAATAAC--T-TTTTTTAACCATGACGTG
1 TAATAACAATATTTTTTTA-CATGACGTG
35214762 TAA
1 TAA
35214765 CATGTTTTTG
Statistics
Matches: 172, Mismatches: 31, Indels: 41
0.70 0.13 0.17
Matches are distributed among these distances:
23 4 0.02
24 12 0.07
25 14 0.08
26 25 0.15
27 23 0.13
28 29 0.17
29 38 0.22
30 2 0.01
31 25 0.15
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (28 bp):
TAATAACAATATTTTTTTACATGACGTG
Found at i:35214787 original size:109 final size:109
Alignment explanation
Indices: 35214587--35214788 Score: 325
Period size: 109 Copynumber: 1.9 Consensus size: 109
35214577 TGTTTTTGTG
35214587 CATGACGTATAACAATAATATTTTTTTTCAACATGGCGTGTAATAACTTTTTTTAACCATGACGT
1 CATGACGTATAACAATAATATTTTTTTTCAACATGGCGTGTAATAACTTTTTTTAACCATGACGT
* * *
35214652 GTAACATGTTTTTATACATGATGTGTAATAACAATATTTTTTTA
66 GTAACATGTTTTTACACATAAAGTGTAATAACAATATTTTTTTA
* * *
35214696 CATGACGTGTAATAATAATATTTTTTTTCATCAT-GCAGTGTAATAACTTTTTTTAACCATGACG
1 CATGACGTATAACAATAATATTTTTTTTCAACATGGC-GTGTAATAACTTTTTTTAACCATGACG
*
35214760 TGTAACATGTTTTTGCACATAAAGTGTAA
65 TGTAACATGTTTTTACACATAAAGTGTAA
35214789 CAATAACACT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
108 2 0.02
109 83 0.98
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (109 bp):
CATGACGTATAACAATAATATTTTTTTTCAACATGGCGTGTAATAACTTTTTTTAACCATGACGT
GTAACATGTTTTTACACATAAAGTGTAATAACAATATTTTTTTA
Found at i:35214808 original size:109 final size:109
Alignment explanation
Indices: 35214587--35214818 Score: 313
Period size: 109 Copynumber: 2.1 Consensus size: 109
35214577 TGTTTTTGTG
35214587 CATGACGTATAACAATAATATTTTTTTTCAACATGGCGTGTAATAACTTTTTTTAACCATGACGT
1 CATGACGTATAACAATAATATTTTTTTTCAACATGGCGTGTAATAACTTTTTTTAACCATGACGT
* * * * * * **
35214652 GTAACATGTTTTTATACATGATGTGTAATAACAATATTTTTTTA
66 GTAACATGTTTTTACACATAAAGTGTAACAACAACACTTTTCAA
* * *
35214696 CATGACGTGTAATAATAATATTTTTTTTCATCAT-GCAGTGTAATAACTTTTTTTAACCATGACG
1 CATGACGTATAACAATAATATTTTTTTTCAACATGGC-GTGTAATAACTTTTTTTAACCATGACG
* *
35214760 TGTAACATGTTTTTGCACATAAAGTGTAACAATAACACTTTTCAA
65 TGTAACATGTTTTTACACATAAAGTGTAACAACAACACTTTTCAA
**
35214805 CATGATATATAACA
1 CATGACGTATAACA
35214819 TCATGTGCAT
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
108 2 0.02
109 103 0.98
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (109 bp):
CATGACGTATAACAATAATATTTTTTTTCAACATGGCGTGTAATAACTTTTTTTAACCATGACGT
GTAACATGTTTTTACACATAAAGTGTAACAACAACACTTTTCAA
Found at i:35214838 original size:21 final size:21
Alignment explanation
Indices: 35214814--35214903 Score: 135
Period size: 21 Copynumber: 4.3 Consensus size: 21
35214804 ACATGATATA
35214814 TAACATCATGTGCATGGTGTG
1 TAACATCATGTGCATGGTGTG
35214835 TAACATCATGTGCATGGTGTG
1 TAACATCATGTGCATGGTGTG
* ***
35214856 TAACATTATGTGCATGCCATG
1 TAACATCATGTGCATGGTGTG
*
35214877 TAACATCATGTGCATAGTGTG
1 TAACATCATGTGCATGGTGTG
35214898 TAACAT
1 TAACAT
35214904 GACGAGCAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (21 bp):
TAACATCATGTGCATGGTGTG
Found at i:35214968 original size:21 final size:21
Alignment explanation
Indices: 35214925--35214968 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
35214915 TGTTTTTGTA
* *
35214925 CATAGCGTGTAACGTCATTTG
1 CATAGCGTGTAACATCATGTG
* *
35214946 CATAACGTGTAACATTATGTG
1 CATAGCGTGTAACATCATGTG
35214967 CA
1 CA
35214969 CTTGATACCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (21 bp):
CATAGCGTGTAACATCATGTG
Found at i:35220263 original size:20 final size:19
Alignment explanation
Indices: 35220233--35220283 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
35220223 TCAGATAACT
* * *
35220233 AATAGAATAAATAACATAA
1 AATAAAATAAACAAAATAA
35220252 AACTAAAATAAAACAAAATAA
1 AA-TAAAAT-AAACAAAATAA
35220273 AATAAAATAAA
1 AATAAAATAAA
35220284 ATGAAATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 5 0.19
20 11 0.41
21 11 0.41
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (19 bp):
AATAAAATAAACAAAATAA
Found at i:35220296 original size:5 final size:5
Alignment explanation
Indices: 35220241--35220295 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
35220231 CTAATAGAAT
* * * *
35220241 AAATA ACATA AAACTA AAATA AAACA AAATA AAATA AAATA AAATG AAATG
1 AAATA AAATA AAA-TA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
35220292 AAAT
1 AAAT
35220296 GTGAAAACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
5 39 0.89
6 5 0.11
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:35225131 original size:30 final size:29
Alignment explanation
Indices: 35225084--35225149 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 29
35225074 AAATATGACT
35225084 TGTAATAATAATATTTTTTCAACATAGCG
1 TGTAATAATAATATTTTTTCAACATAGCG
* *
35225113 TGTAATAATAATTTTTTTTTCAACATAGTG
1 TGTAATAATAA-TATTTTTTCAACATAGCG
35225143 TGTAATA
1 TGTAATA
35225150 TGTTTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 11 0.32
30 23 0.68
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (29 bp):
TGTAATAATAATATTTTTTCAACATAGCG
Found at i:35225204 original size:28 final size:27
Alignment explanation
Indices: 35225177--35225237 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
35225167 TGTAACAACA
*
35225177 ATATTTTTTTTCAA-CATGCCATATAAC
1 ATATTTTTTTT-AACCATGACATATAAC
* *
35225204 A-ACTTTTTTTAACCATGACATGTAAC
1 ATATTTTTTTTAACCATGACATATAAC
35225230 ATATTTTT
1 ATATTTTT
35225238 ATACATGACG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.71
27 6 0.21
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (27 bp):
ATATTTTTTTTAACCATGACATATAAC
Found at i:35225309 original size:80 final size:81
Alignment explanation
Indices: 35225142--35225317 Score: 221
Period size: 80 Copynumber: 2.2 Consensus size: 81
35225132 TCAACATAGT
* * *
35225142 GTGTAATATGTTTTTGTACATGACGTGTAACAACAATATTTTTTTTCAACATGCCATATAACAAC
1 GTGTAACATATTTTTATACATGACGTGTAACAACAATATTTTTTTTCAACATGCCATATAACAAC
35225207 TTTTTTTAACCATGAC
66 TTTTTTTAACCATGAC
* * * ** * *
35225223 ATGTAACATATTTTTATACATGACGTGTAATAATAATA-TTTTTTTCATTATG-GAGTGTAACAA
1 GTGTAACATATTTTTATACATGACGTGTAACAACAATATTTTTTTTCAACATGCCA-TATAACAA
*
35225286 CTTTTTTTAACTATGAC
65 CTTTTTTTAACCATGAC
*
35225303 GTGTAACATTTTTTT
1 GTGTAACATATTTTT
35225318 GCACATAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 48 0.59
81 32 0.40
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (81 bp):
GTGTAACATATTTTTATACATGACGTGTAACAACAATATTTTTTTTCAACATGCCATATAACAAC
TTTTTTTAACCATGAC
Found at i:35225314 original size:24 final size:24
Alignment explanation
Indices: 35225207--35225317 Score: 64
Period size: 24 Copynumber: 4.3 Consensus size: 24
35225197 ATATAACAAC
* *
35225207 TTTTTTTAACCATGACATGTAACA
1 TTTTTTTAACTATGACGTGTAACA
* *
35225231 TATTTTTATAC-ATGACGTGTAATAATAATA
1 TTTTTTTA-ACTATGACGTG------TAACA
* *
35225261 TTTTTTTCATTATGGA-GTGTAACAA
1 TTTTTTTAACTAT-GACGTGTAAC-A
35225286 CTTTTTTTAACTATGACGTGTAACA
1 -TTTTTTTAACTATGACGTGTAACA
35225311 TTTTTTT
1 TTTTTTT
35225318 GCACATAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
24 24 0.36
25 6 0.09
26 18 0.27
29 1 0.02
30 15 0.23
31 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.48
Consensus pattern (24 bp):
TTTTTTTAACTATGACGTGTAACA
Found at i:35225413 original size:21 final size:21
Alignment explanation
Indices: 35225358--35225426 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
35225348 ACATGATGTA
*
35225358 TAACATCATGTGCATGGTGTG
1 TAACATCATGTGCATAGTGTG
* * * **
35225379 TAATATTATATGCATAACGTG
1 TAACATCATGTGCATAGTGTG
35225400 TAACATCATGTGCATAGTGTG
1 TAACATCATGTGCATAGTGTG
35225421 TAACAT
1 TAACAT
35225427 GACGTGTAAC
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (21 bp):
TAACATCATGTGCATAGTGTG
Found at i:35225770 original size:26 final size:25
Alignment explanation
Indices: 35225725--35225777 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
35225715 GAAAACATCT
*
35225725 TATCTTTGAGAGTTACTTTTAAAAA
1 TATCTTTGAGAATTACTTTTAAAAA
* *
35225750 TATCTTCTGAGAATTATTTTTTAAAA
1 TATCTT-TGAGAATTACTTTTAAAAA
35225776 TA
1 TA
35225778 CTCCAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (25 bp):
TATCTTTGAGAATTACTTTTAAAAA
Found at i:35231708 original size:16 final size:14
Alignment explanation
Indices: 35231689--35231731 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
35231679 CTAATAGAAT
35231689 AAATAACATAAAACTA
1 AAATAA-ATAAAAC-A
*
35231705 AAATAAAACAAAACA
1 AAAT-AAATAAAACA
35231720 AAATAAATAAAA
1 AAATAAATAAAA
35231732 TGAAATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 10 0.42
17 2 0.08
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATAAATAAAACA
Found at i:35236976 original size:26 final size:26
Alignment explanation
Indices: 35236937--35236986 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35236927 ACAATAATAT
* * *
35236937 TTTTTTTCATTATAATGTGTAATAAC
1 TTTTTTTAACTATAACGTGTAATAAC
35236963 TTTTTTTAACTATAACGTGTAATA
1 TTTTTTTAACTATAACGTGTAATA
35236987 TGTTTTTACC
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (26 bp):
TTTTTTTAACTATAACGTGTAATAAC
Found at i:35236992 original size:26 final size:25
Alignment explanation
Indices: 35236931--35236993 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
35236921 CATGTAACAA
* * *
35236931 TAATATTTTTTTTCATTATAATGTG
1 TAATATTTTTTTTAACTATAACGTG
*
35236956 TAATAACTTTTTTTAACTATAACGTG
1 TAAT-ATTTTTTTTAACTATAACGTG
*
35236982 TAATATGTTTTT
1 TAATATTTTTTT
35236994 ACCCATAACG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (25 bp):
TAATATTTTTTTTAACTATAACGTG
Found at i:35237060 original size:21 final size:21
Alignment explanation
Indices: 35237025--35237081 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
35237015 CATTTTTCAA
* * *
35237025 CATGATGTATAACATCATGTG
1 CATGACGTGTAACATCATATG
* *
35237046 TATGACGTGTTACATCATATG
1 CATGACGTGTAACATCATATG
35237067 CATGACGTGTAACAT
1 CATGACGTGTAACAT
35237082 GGAATGTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (21 bp):
CATGACGTGTAACATCATATG
Found at i:35237294 original size:178 final size:177
Alignment explanation
Indices: 35237006--35237660 Score: 597
Period size: 178 Copynumber: 3.7 Consensus size: 177
35236996 CCATAACGTA
* * ** * *
35237006 TAACAATAACATTTTTCAACATGATGTATAACATCATGTGTATGACGTGTTACATCATATGCA-T
1 TAACAATAACACTTTTCAACATGGTGTATAACATCATGTACATGACGTGTAACATCATGTGCATT
* * * * * *
35237070 GACGTGTAACATGGAATGTA-ATATATTTGTATATATGACGTGTAACGTCATGTGCACTTGATAT
66 G-TGTGTAACATGGAGTGTACATGTCTTTGTACATA--ACATGTAACGTCATGTGCACTTGATAT
** * *
35237134 AAAAAGGTTTCATTAATCATGGCGTGTAACATGTTTTTGCACATGGTATG
128 AAGGAGGTTTCATTAATCATGGCGTGTAACATGTTTTTGCATATGATATG
* * *
35237184 TAACAATAACACTTTTCAATATGGTGTATAATATGATGTACATGACGTGTAACATCATGTGCATT
1 TAACAATAACACTTTTCAACATGGTGTATAACATCATGTACATGACGTGTAACATCATGTGCATT
* * ** *
35237249 GTGTGTAACATAGAGTGTAACATGTCTTTGTACTTGGCATGTAACGTTATGTGCACTTGATATAA
66 GTGTGTAACATGGAGTGT-ACATGTCTTTGTACATAACATGTAACGTCATGTGCACTTGATATAA
* * ** *
35237314 GGAGGTTTCAGTAACCATGATGTGTAACATGTTTTGGCATATGATATG
130 GGAGGTTTCATTAATCATGGCGTGTAACATGTTTTTGCATATGATATG
* * * * * * * *
35237362 TAATAATAATACTTTTCAACATGTTGTATAACATCATGTGCATTG-TGTGTAACATAGAGTTTAA
1 TAACAATAACACTTTTCAACATGGTGTATAACATCATGTACA-TGACGTGTAACAT-CA-TGT-G
* * * * * * * *
35237426 CATATTTTTGT-ACA-CG-GTGTACAACGTC-ATGTGCATAATATGTAACGTCATGTGCATTTGA
62 CAT-TGTGTGTAACATGGAGTGTAC-ATGTCTTTGTACATAACATGTAACGTCATGTGCACTTGA
* * **
35237487 TATAAGGAGGTTTCATT-ATCTATGGCGTGCAAATATGTTTTTGCATATGACCTG
125 TATAAGGAGGTTTCATTAATC-ATGGCGTG-TAACATGTTTTTGCATATGATATG
* * * * * * **
35237541 TTACAATAACACTTTTTAACATGGTGTATATCATGATGTACATGACGTGTAACATTATGTGTAAA
1 TAACAATAACACTTTTCAACATGGTGTATAACATCATGTACATGACGTGTAACATCATGTGCATT
* * *
35237606 GTGTATAACATGGAGTGTAACATGTTTTTGTACATAACTTGTAACGTCATGTGCA
66 GTGTGTAACATGGAGTGT-ACATGTCTTTGTACATAACATGTAACGTCATGTGCA
35237661 TAACGCGTAA
Statistics
Matches: 374, Mismatches: 86, Indels: 33
0.76 0.17 0.07
Matches are distributed among these distances:
175 3 0.01
176 4 0.01
177 5 0.01
178 236 0.63
179 102 0.27
180 13 0.03
181 6 0.02
182 5 0.01
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (177 bp):
TAACAATAACACTTTTCAACATGGTGTATAACATCATGTACATGACGTGTAACATCATGTGCATT
GTGTGTAACATGGAGTGTACATGTCTTTGTACATAACATGTAACGTCATGTGCACTTGATATAAG
GAGGTTTCATTAATCATGGCGTGTAACATGTTTTTGCATATGATATG
Found at i:35237834 original size:21 final size:21
Alignment explanation
Indices: 35237808--35237847 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35237798 TTTGTACATG
*
35237808 ACATGTAACGTTATGTGCATA
1 ACATGTAACGTCATGTGCATA
35237829 ACATGTAACGTCATGTGCA
1 ACATGTAACGTCATGTGCA
35237848 CTTGATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
ACATGTAACGTCATGTGCATA
Found at i:35238004 original size:21 final size:21
Alignment explanation
Indices: 35237962--35238022 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
35237952 TTTGTACATG
* *
35237962 ACATGTAACGTCGTATGCATA
1 ACATGTAACGTCATGTGCATA
* *
35237983 ACATGTAACATCATGTGTATA
1 ACATGTAACGTCATGTGCATA
**
35238004 ATGTGTAACGTCATGTGCA
1 ACATGTAACGTCATGTGCA
35238023 CTTGATATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGTAACGTCATGTGCATA
Found at i:35238127 original size:21 final size:21
Alignment explanation
Indices: 35238075--35238129 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
35238065 ACACTTTTCA
* *
35238075 ACATGGTGTATAACATTATGT
1 ACATGGTGTGTAACATCATGT
* **
35238096 GCATGACGTGTAACATCATGT
1 ACATGGTGTGTAACATCATGT
35238117 ACATGGTGTGTAA
1 ACATGGTGTGTAA
35238130 TATAGAGTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.33
Consensus pattern (21 bp):
ACATGGTGTGTAACATCATGT
Found at i:35239116 original size:16 final size:16
Alignment explanation
Indices: 35239091--35239132 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
35239081 GTAATAATAT
*
35239091 TATTAAATATTATTAA
1 TATTATATATTATTAA
*
35239107 TATTATATA-TATTTA
1 TATTATATATTATTAA
35239122 TATATATATAT
1 TAT-TATATAT
35239133 ATATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATATATTATTAA
Found at i:35239117 original size:2 final size:2
Alignment explanation
Indices: 35239106--35239139 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
35239096 AATATTATTA
*
35239106 AT AT -T AT AT AT AT TT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35239140 AATTGCCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:35252334 original size:19 final size:19
Alignment explanation
Indices: 35252310--35252348 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35252300 TAAAAAAATA
35252310 ATTTA-TATTATTATTATTT
1 ATTTATTATTATT-TTATTT
*
35252329 ATTTATTTTTATTTTATTT
1 ATTTATTATTATTTTATTT
35252348 A
1 A
35252349 CTTCTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTATTATTATTTTATTT
Found at i:35252347 original size:15 final size:14
Alignment explanation
Indices: 35252310--35252348 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
35252300 TAAAAAAATA
35252310 ATTTATATTATTATT
1 ATTTAT-TTATTATT
*
35252325 ATTTATTTATTTTT
1 ATTTATTTATTATT
35252339 ATTTTATTTA
1 A-TTTATTTA
35252349 CTTCTATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTATTTATTATT
Done.