Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 87 of 259
Found at i:28378900 original size:82 final size:81
Alignment explanation
Indices: 28378782--28378937 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
28378772 TGCTATATAA
* * *
28378782 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
28378847 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
28378864 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
28378928 CACTTAGTGC
65 CACTTAGTGC
28378938 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:28396387 original size:6 final size:6
Alignment explanation
Indices: 28396357--28396549 Score: 110
Period size: 6 Copynumber: 31.3 Consensus size: 6
28396347 AAGAAACATT
* *
28396357 ATCAGA A-CTAGA ATCAAA ATTAGA ATCAGA ATCAGA ATCAG- ATGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
28396406 ATCAGA ATCAAA ATTAGA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * * *
28396455 ATCAGGTA AT-AGA ATCAGA ATCAGA ATCAAA ATCAAA ATCAAA ATTAGGTG
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
28396506 AT-AGA ATCAAA ATCAGT ATCAAGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA AT
28396550 GTGAATGCAA
Statistics
Matches: 145, Mismatches: 25, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
5 11 0.08
6 114 0.79
7 12 0.08
8 8 0.06
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:28396407 original size:19 final size:19
Alignment explanation
Indices: 28396383--28396453 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
28396373 AAATTAGAAT
28396383 CAGAATCAGAATCAGATGA
1 CAGAATCAGAATCAGATGA
*
28396402 CAGAATCAGAATCA-A-AA
1 CAGAATCAGAATCAGATGA
* * * *
28396419 TTAGAATCAAAATTAGGTGA
1 -CAGAATCAGAATCAGATGA
28396439 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
28396454 TATCAGGTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
17 1 0.03
18 12 0.30
19 26 0.65
20 1 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGATGA
Found at i:28396415 original size:31 final size:30
Alignment explanation
Indices: 28396378--28396549 Score: 91
Period size: 31 Copynumber: 5.6 Consensus size: 30
28396368 AATCAAAATT
*
28396378 AGAATCAGAATCAGAATCAGATGACAGAATC
1 AGAATCAGAATCAGAATCAGAT-AAAGAATC
* * * * * *
28396409 AGAATCAAAATTAGAATCAAAATTAGGTGA-C
1 AGAATCAGAATCAGAATC-AGATAAAG-AATC
* *
28396440 AGAATCAGAATCAGTATCAGGTAATAGAATC
1 AGAATCAGAATCAGAATCAGATAA-AGAATC
* * * *
28396471 AGAATCAGAATCAAAATCAAAATCAA-AATT
1 AGAATCAGAATCAGAATC-AGATAAAGAATC
* * *
28396501 AGGTGAT-AGAATCAAAATCAGTATCAAGTAA-C
1 A-G-AATCAGAATCAGAATCAG-ATAAAG-AATC
28396533 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
28396550 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 26, Indels: 22
0.68 0.17 0.14
Matches are distributed among these distances:
30 11 0.11
31 81 0.78
32 10 0.10
33 2 0.02
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGATAAAGAATC
Found at i:28396425 original size:37 final size:37
Alignment explanation
Indices: 28396366--28396520 Score: 117
Period size: 37 Copynumber: 4.4 Consensus size: 37
28396356 TATCAGAACT
* * * *
28396366 AGAATCAAAATTAGAATCAGAATCAGAATCAGATGAC
1 AGAATCAGAATCAAAATCAGAATCAAAATCAGATGAC
* * *
28396403 AGAATCAGAATCAAAATTAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAAAATCAGAATCAAAATCAGATGAC
** *
28396440 AGAATCAGAATCAGTATCAG-GT---AAT-AGA--ATC
1 AGAATCAGAATCAAAATCAGAATCAAAATCAGATGA-C
* * * *
28396471 AGAATCAGAATCAAAATCAAAATCAAAATTAGGTGAT
1 AGAATCAGAATCAAAATCAGAATCAAAATCAGATGAC
*
28396508 AGAATCAAAATCA
1 AGAATCAGAATCA
28396521 GTATCAAGTA
Statistics
Matches: 91, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
30 1 0.01
31 18 0.20
32 3 0.03
33 3 0.03
35 3 0.03
36 3 0.03
37 59 0.65
38 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (37 bp):
AGAATCAGAATCAAAATCAGAATCAAAATCAGATGAC
Found at i:28396461 original size:25 final size:25
Alignment explanation
Indices: 28396433--28396546 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
28396423 AATCAAAATT
*
28396433 AGGTGACAGAATCAGAATCAGTATC
1 AGGTAACAGAATCAGAATCAGTATC
* *
28396458 AGGTAATAGAATCAGAATCAGAATC
1 AGGTAACAGAATCAGAATCAGTATC
* *
28396483 A--AAATCAAAATCA-AA--A-T-T-
1 AGGTAA-CAGAATCAGAATCAGTATC
* * *
28396501 AGGTGATAGAATCAAAATCAGTATC
1 AGGTAACAGAATCAGAATCAGTATC
*
28396526 AAGTAACAGAATCAGAATCAG
1 AGGTAACAGAATCAGAATCAG
28396547 AATGTGAATG
Statistics
Matches: 65, Mismatches: 15, Indels: 18
0.66 0.15 0.18
Matches are distributed among these distances:
18 1 0.02
19 7 0.11
20 3 0.05
21 1 0.02
22 1 0.02
23 5 0.08
24 7 0.11
25 40 0.62
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (25 bp):
AGGTAACAGAATCAGAATCAGTATC
Found at i:28396475 original size:62 final size:62
Alignment explanation
Indices: 28396378--28396545 Score: 210
Period size: 68 Copynumber: 2.6 Consensus size: 62
28396368 AATCAAAATT
* * * * *
28396378 AGAATCAGAATCAGAATCAGATGACAGAATCAGAATCAAAATTAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGAC
28396440 AGAATCAGAATCAGTATCAGGTAATAGAATCAGAATCAGAATCAAAATCAAAATCAAAATTAGGT
1 AGAATCAGAATCAGTATCAGG---T--AA-CAGAATCAGAATCAAAATCAAAATCAAAATTAGGT
*
28396505 GAT
60 GAC
* *
28396508 AGAATCAAAATCAGTATCAAGTAACAGAATCAGAATCA
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCA
28396546 GAATGTGAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
62 33 0.36
63 2 0.02
65 2 0.02
67 1 0.01
68 54 0.59
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGAC
Found at i:28396487 original size:68 final size:68
Alignment explanation
Indices: 28396402--28396549 Score: 242
Period size: 68 Copynumber: 2.2 Consensus size: 68
28396392 AATCAGATGA
* * * * *
28396402 CAGAATCAGAATCAAAATTAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAATAG
1 CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGACAGAATCAAAATCAGTATCAAGTAACAG
28396467 AAT
66 AAT
*
28396470 CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGATAGAATCAAAATCAGTATCAAGTAACAG
1 CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGACAGAATCAAAATCAGTATCAAGTAACAG
28396535 AAT
66 AAT
28396538 CAGAATCAGAAT
1 CAGAATCAGAAT
28396550 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (68 bp):
CAGAATCAGAATCAAAATCAAAATCAAAATTAGGTGACAGAATCAAAATCAGTATCAAGTAACAG
AAT
Found at i:28396706 original size:27 final size:26
Alignment explanation
Indices: 28396676--28396752 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
28396666 GGCAGAGCAG
* *
28396676 ATATTGTGACAGAGTCACCAGATACAA
1 ATATTGTGACAAAGCCACCAGA-ACAA
* *
28396703 ATATTGTGGCAAAGCCACCAGAACAT
1 ATATTGTGACAAAGCCACCAGAACAA
* * *
28396729 ATATTTTTGGCATAGCCACCAGAA
1 ATA-TTGTGACAAAGCCACCAGAA
28396753 ACAGATAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.14
27 37 0.86
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (26 bp):
ATATTGTGACAAAGCCACCAGAACAA
Found at i:28396774 original size:27 final size:27
Alignment explanation
Indices: 28396691--28396774 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
28396681 GTGACAGAGT
* *
28396691 CACCAGATACAAATATTGTGGCAAAGC
1 CACCAGAAACAAATATTGTTGCAAAGC
* * *
28396718 CACCAG-AACATATATTTTTGGCATAGC
1 CACCAGAAACAAATATTGTT-GCAAAGC
* * *
28396745 CACCAGAAACAGATAATGTTGCAAATC
1 CACCAGAAACAAATATTGTTGCAAAGC
28396772 CAC
1 CAC
28396775 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 9 0.20
27 26 0.58
28 10 0.22
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (27 bp):
CACCAGAAACAAATATTGTTGCAAAGC
Found at i:28399033 original size:18 final size:18
Alignment explanation
Indices: 28398953--28399033 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
28398943 AAGAAACATT
* * *
28398953 ATCAGAACTAGAAACAAA
1 ATCAGAATTAGAATCAGA
*
28398971 ATGAGAATTAGAATCAGA
1 ATCAGAATTAGAATCAGA
* * * *
28398989 ATCATAAATAAAATTAG-
1 ATCAGAATTAGAATCAGA
*
28399006 GTGACAGAATTAGAATCAGA
1 AT--CAGAATTAGAATCAGA
28399026 ATCAGAAT
1 ATCAGAAT
28399034 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
17 1 0.02
18 32 0.71
19 11 0.24
20 1 0.02
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.21
Consensus pattern (18 bp):
ATCAGAATTAGAATCAGA
Found at i:28399205 original size:27 final size:26
Alignment explanation
Indices: 28399151--28399251 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 26
28399141 AGCATGGCTG
*** **
28399151 CCAGAACAGATATTGTAATAGAGTCA
1 CCAGAACAGATATTGTGGCAGAACCA
28399177 CCAGATACAGATATTGTGGCAGAACCA
1 CCAGA-ACAGATATTGTGGCAGAACCA
* * *
28399204 CCAGAACAGATATTTGTGGCATAGCAA
1 CCAGAACAGATA-TTGTGGCAGAACCA
*
28399231 CCAGAAACAGATAATGTGGCA
1 CCAG-AACAGATATTGTGGCA
28399252 AAGCCATTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.19
27 43 0.68
28 8 0.13
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAACCA
Found at i:28399930 original size:27 final size:27
Alignment explanation
Indices: 28399871--28400009 Score: 154
Period size: 27 Copynumber: 5.2 Consensus size: 27
28399861 GGCAAAATGG
* * *
28399871 TAATTTTACCCCACAAGGGTA-TTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
28399897 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
28399924 TATTTCTACCCTACTAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
28399951 TAATTCTATCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
28399978 TAATTCTACCTTACAAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
28400005 TAATT
1 TAATT
28400010 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 18 0.19
27 77 0.81
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:28399969 original size:54 final size:54
Alignment explanation
Indices: 28399873--28400009 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
28399863 CAAAATGGTA
* * **
28399873 ATTT-TACCCCACAAGGGTA-TTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAAT
* * *
28399925 ATTTCTACCCTACTAGGGTATTTCGATAATTCTATCCTATAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAAT
* * *
28399979 AATTCTACCTTACAAGGGTATTTCAATAATT
1 ATTTCTACCCTACAAGGGTATTTCGATAATT
28400010 TTGTAAATCG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 4 0.06
53 13 0.18
54 55 0.76
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAAT
Found at i:28402100 original size:6 final size:6
Alignment explanation
Indices: 28402070--28402169 Score: 64
Period size: 6 Copynumber: 16.3 Consensus size: 6
28402060 AAGAAACATT
* * *
28402070 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
28402118 ATTATGTG A-CAGA ATCAGA ATCAGTA AT-AGGTA A-CAGA CTCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAG-A ATCA-G-A ATCAGA ATCAGA ATCAGA
28402168 AT
1 AT
28402170 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.04
6 60 0.80
7 11 0.15
8 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:28402133 original size:25 final size:25
Alignment explanation
Indices: 28402102--28402169 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
28402092 GAATCAGAAT
* * *
28402102 CAGAATCAGAATTAGAATTATGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
28402127 CAGAATCAGAATCAGTAA-TAGGTAA
1 CAGAATCAGAATCAG-AATTAGGTAA
*
28402152 CAGACTCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
28402170 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 33 0.89
26 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:28402384 original size:27 final size:27
Alignment explanation
Indices: 28402311--28402394 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
28402301 GTAACAGAGT
* *
28402311 CACCAAATACAAATAT-TGTGGTAGAGC
1 CACCAAA-ACAAATATATGTGGCAAAGC
* *
28402338 CACCAAAACAAATATTTGTGGCATAGC
1 CACCAAAACAAATATATGTGGCAAAGC
*
28402365 CACCAGAAACAGATA-ATGTGGCAAAGC
1 CACCA-AAACAAATATATGTGGCAAAGC
28402392 CAC
1 CAC
28402395 TTAACAGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 8 0.16
27 34 0.68
28 8 0.16
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (27 bp):
CACCAAAACAAATATATGTGGCAAAGC
Found at i:28403037 original size:27 final size:26
Alignment explanation
Indices: 28403007--28403146 Score: 163
Period size: 27 Copynumber: 5.2 Consensus size: 26
28402997 GGCAAAATGG
* * * *
28403007 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTC-A
*
28403034 TAATTCTACCCTATAGGGGTATTTCA
1 TAATTCTACCCTACAGGGGTATTTCA
* *
28403060 TTATTTCTACCCTACAAGGGTATTTCA
1 -TAATTCTACCCTACAGGGGTATTTCA
*
28403087 GTAATTCTACCCTATAGGGGTATTTCA
1 -TAATTCTACCCTACAGGGGTATTTCA
28403114 GTAATTCTACCCTACAGGGGTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTC-A
28403142 TAATT
1 TAATT
28403147 TTGTAAATCG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 96 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (26 bp):
TAATTCTACCCTACAGGGGTATTTCA
Found at i:28403161 original size:27 final size:27
Alignment explanation
Indices: 28403131--28403234 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 27
28403121 TACCCTACAG
28403131 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTGTAAATCGA
*** ** *
28403158 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTCAATAATTTTGTAAATCGA
** ** *
28403185 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAATAATTTTGTAAATCGA
*
28403212 GGGTATTTCAATAATTTGGTAAA
1 GGGTATTTCAATAATTTTGTAAA
28403235 CTAAAGTATT
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
26 3 0.05
27 53 0.95
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTGTAAATCGA
Found at i:28408660 original size:47 final size:46
Alignment explanation
Indices: 28408542--28408761 Score: 205
Period size: 47 Copynumber: 4.8 Consensus size: 46
28408532 TTTCTTGTGG
* * **
28408542 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CATAGAGATGAGT
*
28408588 GCCAGTGTAAGACAGTGTCTAGGACATGGCATCAGCATAGAGATGAGT
1 GCCAGTGTAAGACA-TGTCTGGGACAT-GCATCAGCATAGAGATGAGT
* * * *
28408636 GCTAGTGTAAGACATGTCTGGGACATGCATCACCCTCGACGATGA-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATAGA-GATGAGT
* * * * **
28408682 AGCCAGTGTAAGGCCTGTCTGGAACATGCATCGGC-T-GAGATTTGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATAGAGATGAGT
* * *
28408727 GCTAGTGTAAGACCTGTCAGGGACATGCATCAGCA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCA
28408762 CATATATACG
Statistics
Matches: 144, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
44 32 0.22
45 3 0.02
46 26 0.18
47 58 0.40
48 25 0.17
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATAGAGATGAGT
Found at i:28408709 original size:94 final size:91
Alignment explanation
Indices: 28408545--28408758 Score: 245
Period size: 94 Copynumber: 2.3 Consensus size: 91
28408535 CTTGTGGGCC
** ** *
28408545 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACAGTGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCACCCACACGATGAGTGCCAGTGTAAGACACTGTCTAG
28408610 GACATGGCATCAGCATAGAGATGAGTGCT
66 GACAT-GCATCAGC-T-GAGATGAGTGCT
* *
28408639 AGTGTAAGACATGTCTGGGACATGCATCACCCTCGACGATGA-TAGCCAGTGTAAGGC-CTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCACCCAC-ACGATGAGT-GCCAGTGTAAGACACTGTCT
* **
28408702 -GGAACATGCATCGGCTGAGATTTGTGCT
64 AGG-ACATGCATCAGCTGAGATGAGTGCT
* *
28408730 AGTGTAAGACCTGTCAGGGACATGCATCA
1 AGTGTAAGACATGTCTGGGACATGCATCA
28408759 GCACATATAT
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 37 0.35
92 1 0.01
93 9 0.09
94 41 0.39
95 17 0.16
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCACCCACACGATGAGTGCCAGTGTAAGACACTGTCTAG
GACATGCATCAGCTGAGATGAGTGCT
Found at i:28408814 original size:141 final size:140
Alignment explanation
Indices: 28408542--28408856 Score: 334
Period size: 141 Copynumber: 2.2 Consensus size: 140
28408532 TTTCTTGTGG
* *
28408542 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACAGTGTC
1 GCCAGTGTAAGACCTGTCTGGGACATGCATCGGCCACATTAT-AGTGCCAGTGTAAGACACTGTC
* * *
28408607 TAGGACATGGCATCAGCATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCACCCT
65 TAGGACATGGCATCAGCATAGAGACGAGAGCTAGTATAAGACATGTCTGGGACATGCATCACCCT
*
28408672 CGACGATGATA
130 CGACGAGGATA
* * * * *
28408683 GCCAGTGTAAGGCCTGTCTGGAACATGCATCGGCTGAGATT-T-GTGCTAGTGTAAGAC-CTGTC
1 GCCAGTGTAAGACCTGTCTGGGACATGCATCGGC-CACATTATAGTGCCAGTGTAAGACACTGTC
* * * * *
28408745 -AGGGACAT-GCATCAGCACATATATACGAGAGCTAGTATAAGACCATGTTTGGGATATGGCATT
65 TA-GGACATGGCATCAG--CATAGAGACGAGAGCTAGTATAAGA-CATGTCTGGGACAT-GCATC
** *
28408808 GGCCTCGATGAGGATA
125 ACCCTCGACGAGGATA
*
28408824 GCCAATGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGACC-TGTCTGGGACAT-GCATC
28408857 AGTAACTTAT
Statistics
Matches: 144, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
137 8 0.06
138 10 0.07
139 34 0.24
140 12 0.08
141 60 0.42
142 15 0.10
143 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (140 bp):
GCCAGTGTAAGACCTGTCTGGGACATGCATCGGCCACATTATAGTGCCAGTGTAAGACACTGTCT
AGGACATGGCATCAGCATAGAGACGAGAGCTAGTATAAGACATGTCTGGGACATGCATCACCCTC
GACGAGGATA
Found at i:28409573 original size:29 final size:29
Alignment explanation
Indices: 28409512--28409573 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
28409502 GGCCTCGTTT
* * *
28409512 TGTCCTCACGGGCAAGACACATGCCCTTT
1 TGTCCTCACGGGCAAGACACACGCCCGTG
**
28409541 TGTCCTCACGGGCAAGACACACGGGCGTG
1 TGTCCTCACGGGCAAGACACACGCCCGTG
28409570 TGTC
1 TGTC
28409574 TAGACCGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.32, G:0.27, T:0.21
Consensus pattern (29 bp):
TGTCCTCACGGGCAAGACACACGCCCGTG
Found at i:28409728 original size:55 final size:55
Alignment explanation
Indices: 28409644--28409769 Score: 191
Period size: 55 Copynumber: 2.3 Consensus size: 55
28409634 GCACTTAAAA
* * * *
28409644 TTTT-AAGTCATTGTTGTACACGAGTAGGCCACATGGGCGTGTGCCATGGCCGTG
1 TTTTAAAGTCAGTATTGTACACGAGCAGGCCACACGGGCGTGTGCCATGGCCGTG
*
28409698 TTTTAAAGTCAGTATTGTACACGGGCAGGCCACACGGGCGTGTGCCATGGCCGTG
1 TTTTAAAGTCAGTATTGTACACGAGCAGGCCACACGGGCGTGTGCCATGGCCGTG
*
28409753 TTTTAAAGTTAGTATTG
1 TTTTAAAGTCAGTATTG
28409770 CACATTAGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
54 4 0.06
55 61 0.94
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (55 bp):
TTTTAAAGTCAGTATTGTACACGAGCAGGCCACACGGGCGTGTGCCATGGCCGTG
Found at i:28416107 original size:47 final size:45
Alignment explanation
Indices: 28416040--28416252 Score: 218
Period size: 47 Copynumber: 4.6 Consensus size: 45
28416030 CTTATGGGCT
*
28416040 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCACA-GATGAGTGCC
* *
28416086 AGTGTAAGACAATGTCTGGGACATGGCATCGGTGTAGAGATGAGTGCC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGG-GCACAGATGAGTGCC
* * *
28416134 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACGATGA-TAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCAC-A-GATGAGT-GCC
* * *
28416181 AGTGTAAGACCTGTCTGGGACATGCATC-GGCTA-AGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGGC-ACAGATG-AGTGCC
* *
28416225 AGTGTAAGACATATCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
28416253 AGCACGTATA
Statistics
Matches: 141, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 29 0.21
45 2 0.01
46 21 0.15
47 59 0.42
48 26 0.18
49 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGGCACAGATGAGTGCC
Found at i:28416201 original size:94 final size:91
Alignment explanation
Indices: 28416040--28416252 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 91
28416030 CTTATGGGCT
* **
28416040 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGAGTGCCAGTGTAAGACAATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACAATGTCTGG
*
28416105 GACATGGCATCGG-TGTAGAGATGAGTGCC
66 GACAT-GCATCGGCT-AAGAG-T-AGTGCC
* * *
28416134 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACGATGA-TAGCCAGTGTAAGAC-CTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTGTAAGACAATGTCT
* *
28416197 GGGACATGCATCGGCTAAGAGTTGTGCT
64 GGGACATGCATCGGCTAAGAGTAGTGCC
* *
28416225 AGTGTAAGACATATCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
28416253 AGCACGTATA
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 29 0.28
92 1 0.01
93 11 0.11
94 45 0.43
95 18 0.17
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACAATGTCTGG
GACATGCATCGGCTAAGAGTAGTGCC
Found at i:28417233 original size:13 final size:13
Alignment explanation
Indices: 28417215--28417240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28417205 TGTGTGCCAT
28417215 GGCCATGTTTTAA
1 GGCCATGTTTTAA
28417228 GGCCATGTTTTAA
1 GGCCATGTTTTAA
28417241 AGTCAGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
GGCCATGTTTTAA
Found at i:28418647 original size:23 final size:24
Alignment explanation
Indices: 28418571--28418690 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
28418561 GCTTTATCAT
*
28418571 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
28418596 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
*
28418621 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
28418644 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
28418668 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28418691 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
23 23 0.26
24 34 0.39
25 24 0.28
26 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28418679 original size:47 final size:47
Alignment explanation
Indices: 28418592--28418689 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
28418582 CCTAGCCTCT
28418592 TTTAATAACTGGGGCAAAGCCCTTTTTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCC-TTTTTAATAACTAGGGCATAAGCCC
*
28418640 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTAGGGCATAAGCCC
28418687 TTT
1 TTT
28418690 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 26 0.54
48 16 0.33
49 6 0.12
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTAGGGCATAAGCCC
Found at i:28418767 original size:20 final size:20
Alignment explanation
Indices: 28418744--28418806 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
28418734 GAACATCTCG
*
28418744 TGTGCATATCTTACATATCA
1 TGTGCATATCATACATATCA
*
28418764 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
28418784 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
28418804 TGT
1 TGT
28418807 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:28418871 original size:25 final size:25
Alignment explanation
Indices: 28418843--28418890 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28418833 ATATATAAAC
* * *
28418843 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28418868 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28418891 CACATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28421210 original size:40 final size:40
Alignment explanation
Indices: 28421166--28421278 Score: 192
Period size: 40 Copynumber: 2.8 Consensus size: 40
28421156 AGCCGAAGGA
28421166 TACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
1 TACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
28421206 TACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
1 TACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
* *
28421246 TACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 TACTA-AATCCGGGTTAAGTCCCGAAGGCATTTG
28421279 AACGAGGAGC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
40 68 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
Found at i:28439147 original size:29 final size:28
Alignment explanation
Indices: 28439111--28439188 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
28439101 TCATGAGATT
28439111 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
28439141 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
28439168 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
28439189 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:28446191 original size:21 final size:23
Alignment explanation
Indices: 28446167--28446208 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
28446157 GTACTTGAGT
28446167 ACATTTT-GTT-GCATTTTTAGG
1 ACATTTTAGTTAGCATTTTTAGG
*
28446188 ACATTTTATTTAGCATTTTTA
1 ACATTTTAGTTAGCATTTTTA
28446209 ATATTGCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (23 bp):
ACATTTTAGTTAGCATTTTTAGG
Found at i:28451613 original size:16 final size:16
Alignment explanation
Indices: 28451602--28451644 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
28451592 CAAAAATTCT
28451602 AAATGTCGAAAAGCTG
1 AAATGTCGAAAAGCTG
*
28451618 AAATGTCGAAAAGCCG
1 AAATGTCGAAAAGCTG
*
28451634 AAATGCCGAAA
1 AAATGTCGAAA
28451645 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (16 bp):
AAATGTCGAAAAGCTG
Found at i:28451954 original size:35 final size:29
Alignment explanation
Indices: 28451859--28451999 Score: 162
Period size: 28 Copynumber: 5.0 Consensus size: 29
28451849 CATGAATGTA
*
28451859 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
28451887 AATTTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
28451916 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * *
28451945 AATTTGA-ATGGGCTTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * * *
28451973 AAAGAGA-TTGGGCCTAGTGGGCTATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
28452000 ATATAGGTAT
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 54 0.57
29 41 0.43
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:28451957 original size:57 final size:58
Alignment explanation
Indices: 28451859--28451994 Score: 188
Period size: 57 Copynumber: 2.4 Consensus size: 58
28451849 CATGAATGTA
* * *
28451859 AATGTGATTTGGGCCTAGT-GGCCATATGAATTTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
* *
28451916 AATGTGATTTGGGCCTAATGGGCCACATAAATTTGA-ATGGGCTTAATGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
* *
28451973 AAAGAGA-TTGGGCCTAGTGGGC
1 AATGTGATTTGGGCCTAGTGGGC
28451995 TATATATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 14 0.20
57 42 0.60
58 14 0.20
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (58 bp):
AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
Found at i:28455947 original size:10 final size:10
Alignment explanation
Indices: 28455932--28455961 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
28455922 CGTGTGATAG
*
28455932 GATCTCTAAC
1 GATCTCCAAC
28455942 GATCTCCAAC
1 GATCTCCAAC
28455952 GATCTCCAAC
1 GATCTCCAAC
28455962 CCGAGCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.37, G:0.10, T:0.23
Consensus pattern (10 bp):
GATCTCCAAC
Found at i:28456802 original size:42 final size:42
Alignment explanation
Indices: 28456755--28456958 Score: 264
Period size: 42 Copynumber: 4.8 Consensus size: 42
28456745 TATCGTACCA
* * * ** *
28456755 ATGCCATATCCCAGATATAGTCTTACATGTAATCTTGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*** *
28456797 ATGCCAATAAGTCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
28456840 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
28456882 ATGCCATATCCTAGATATGGTCTTACATGAAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
28456924 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCT
28456959 TAGTAACCCT
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 109 0.77
43 32 0.23
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:28462377 original size:10 final size:10
Alignment explanation
Indices: 28462362--28462391 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
28462352 CGTGTGATAG
*
28462362 GATCTCCGAC
1 GATCTCCAAC
28462372 GATCTCCAAC
1 GATCTCCAAC
28462382 GATCTCCAAC
1 GATCTCCAAC
28462392 CCAAGCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.40, G:0.13, T:0.20
Consensus pattern (10 bp):
GATCTCCAAC
Found at i:28463301 original size:42 final size:42
Alignment explanation
Indices: 28463188--28463345 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
28463178 GTACCAATGA
* * * **
28463188 CATATCCCAGATATGGTCTTGCATGTAATCTTGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* * * *
28463230 CAATAGCCCAGCTATGGTCGTACATGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
*
28463273 CATATTCCAGATATGGTCTTACACGAAATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
** * *
28463315 CATATCTTAGATATGGTATTACACGTAATCT
1 CATATCCCAGATATGGTCTTACACGAAATCT
28463346 TAGTAACCCT
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:28465353 original size:42 final size:42
Alignment explanation
Indices: 28465294--28465377 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
28465284 TTGTAGGTTC
* *
28465294 GTGGCTAGGGAGATCGCAGCACGTTCTATTACCAGGTGTGTA
1 GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
28465336 GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
1 GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
28465378 CATACACTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (42 bp):
GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
Found at i:28465691 original size:29 final size:29
Alignment explanation
Indices: 28465649--28465730 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 29
28465639 ATGATTATGG
28465649 ATGTGATTTGGGCCTAATGGGCCATACGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* *
28465678 ATGTGATTTGGGCC-AATGGACCATATGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* *
28465706 ATGAGA-TTGGGCCTAGTGGGCCATA
1 ATGTGATTTGGGCCTAATGGGCCATA
28465731 TACATGTATG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 7 0.15
28 26 0.55
29 14 0.30
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
ATGTGATTTGGGCCTAATGGGCCATACGA
Found at i:28466886 original size:17 final size:18
Alignment explanation
Indices: 28466853--28466886 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
28466843 TTTAAGGAAG
28466853 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
28466871 GGTTTTCAAT-AAAACA
1 GGTTTTCAATGAAAACA
28466887 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:28468664 original size:15 final size:14
Alignment explanation
Indices: 28468644--28468673 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
28468634 GATATGTTTC
28468644 AAATTACTGTGAATA
1 AAATTACTGT-AATA
28468659 AAATTACTGTAATA
1 AAATTACTGTAATA
28468673 A
1 A
28468674 GTCTATTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (14 bp):
AAATTACTGTAATA
Found at i:28473219 original size:16 final size:16
Alignment explanation
Indices: 28473186--28473219 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28473176 AAATCCTGAT
*
28473186 ATGCCGAAAAGCCGAA
1 ATGCCGAAAAGCCAAA
*
28473202 ATGCCGAAAAGCTAAA
1 ATGCCGAAAAGCCAAA
28473218 AT
1 AT
28473220 TTTGGCTACA
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:0.47, C:0.21, G:0.21, T:0.12
Consensus pattern (16 bp):
ATGCCGAAAAGCCAAA
Found at i:28476853 original size:14 final size:14
Alignment explanation
Indices: 28476808--28476857 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
28476798 TCATCCACAC
28476808 ATATACATA--TAT
1 ATATACATATGTAT
*
28476820 ATATACAAACTG-AT
1 ATATACATA-TGTAT
*
28476834 AAATACATATGTAT
1 ATATACATATGTAT
28476848 ATATACATAT
1 ATATACATAT
28476858 CTAATTACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 8 0.27
13 2 0.07
14 20 0.67
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (14 bp):
ATATACATATGTAT
Found at i:28477169 original size:39 final size:39
Alignment explanation
Indices: 28477117--28477240 Score: 221
Period size: 39 Copynumber: 3.2 Consensus size: 39
28477107 CGAAGTTTGA
* *
28477117 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
*
28477156 ATATAATTTCCGCATATAGCCTACGGAACTTAAGTCCGG
1 ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
28477195 ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
28477234 ATATAAT
1 ATATAAT
28477241 CATCATATAT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (39 bp):
ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
Found at i:28477175 original size:78 final size:79
Alignment explanation
Indices: 28477074--28477240 Score: 214
Period size: 78 Copynumber: 2.1 Consensus size: 79
28477064 GACTATTAGC
* ** *
28477074 CCGGATATAA-TTCCAGCACATAGCCGGC-GAACCCGAAGTTTGAATATGATTCCCGCATATAGC
1 CCGGATATAATTTCCAGCACATAGCCGACGGAA-CCGAAGTCCGAATATAATTCCCGCATATAGC
28477137 CTACGGACCTTAAGT
65 CTACGGACCTTAAGT
* * ** * *
28477152 CCGGATATAATTTCC-GCATATAGCCTACGGAACTTAAGTCCGGATATAATTTCCGCATATAGCC
1 CCGGATATAATTTCCAGCACATAGCCGACGGAACCGAAGTCCGAATATAATTCCCGCATATAGCC
28477216 TACGGACCTTAAGT
66 TACGGACCTTAAGT
28477230 CCGGATATAAT
1 CCGGATATAAT
28477241 CATCATATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 70 0.91
79 7 0.09
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (79 bp):
CCGGATATAATTTCCAGCACATAGCCGACGGAACCGAAGTCCGAATATAATTCCCGCATATAGCC
TACGGACCTTAAGT
Found at i:28483602 original size:22 final size:22
Alignment explanation
Indices: 28483564--28483608 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
28483554 TCGAGAATCG
*
28483564 ACTAAATCATAGCTCTGATACC
1 ACTAAATCATAACTCTGATACC
*
28483586 ACTAAAT-ATAACATCTGTTACC
1 ACTAAATCATAAC-TCTGATACC
28483608 A
1 A
28483609 GTATTCAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (22 bp):
ACTAAATCATAACTCTGATACC
Found at i:28486917 original size:40 final size:40
Alignment explanation
Indices: 28486840--28486980 Score: 196
Period size: 40 Copynumber: 3.5 Consensus size: 40
28486830 ACCCAAGTAT
*
28486840 CTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
28486879 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
28486919 CTTTGGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
28486959 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
28486981 CATCTGAATA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.13
40 76 0.85
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:28488919 original size:43 final size:42
Alignment explanation
Indices: 28488857--28488978 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
28488847 TATCGTACAA
* *
28488857 ATGCCATATCCCAGATATGGTCTTACATGTAATCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTTATATCG
* * * *
28488899 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAATCTTATATCG
* *
28488942 ATGCCATATCCCAGATACGGTCGTACACGTAATCTTA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTTA
28488979 GTAACCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTTATATCG
Found at i:28491563 original size:16 final size:16
Alignment explanation
Indices: 28491542--28491573 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28491532 TGAGTACTTA
*
28491542 GTATTCTGTTGAATAT
1 GTATTCTATTGAATAT
28491558 GTATTCTATTGAATAT
1 GTATTCTATTGAATAT
28491574 TCACGTTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (16 bp):
GTATTCTATTGAATAT
Found at i:28493623 original size:38 final size:38
Alignment explanation
Indices: 28493572--28493732 Score: 133
Period size: 38 Copynumber: 4.0 Consensus size: 38
28493562 TTTCAAATTA
* *
28493572 ACATGTATAACCGTGGCATATCCTCTTAGCACCACATT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACATT
* * *
28493610 ACATGTTTAACCGTGGTATATCCACTTAGCCCCACGTTAATGA
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCAC----AT-T
* * *
28493653 ATCAATATATGTAACCATGGCATATCCACTTAGCACCACGTT
1 A-C-ATGT-T-TAACCGTGGCATATCCACTTAGCACCACATT
* ** *
28493695 ACATGTGTAATAGTGGTATATCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACATT
28493733 TTTTCATTCT
Statistics
Matches: 96, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
38 57 0.59
40 3 0.03
41 1 0.01
42 3 0.03
43 2 0.02
44 1 0.01
45 3 0.03
46 1 0.01
47 25 0.26
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTTTAACCGTGGCATATCCACTTAGCACCACATT
Found at i:28496000 original size:15 final size:15
Alignment explanation
Indices: 28495977--28496018 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
28495967 GAAGCCTAGA
28495977 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
28495992 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
28496007 ATAAGGAAATCC
1 ATAAGGAAATCC
28496019 CATTTACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:28499255 original size:46 final size:47
Alignment explanation
Indices: 28499223--28499314 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
28499213 TCCACTTTTC
* *
28499223 AAATTAACATGTATAACCGTGGCATATCCACTTAGCACCACGTTAAT
1 AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTAAT
* * *
28499270 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTA
1 AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTA
28499315 CATGTTTAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (47 bp):
AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTAAT
Found at i:28501336 original size:56 final size:56
Alignment explanation
Indices: 28501250--28501369 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
28501240 ACAAGGGATG
28501250 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
28501306 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
28501362 ATGGGCAA
1 ATGGGCAA
28501370 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:28502727 original size:40 final size:40
Alignment explanation
Indices: 28502496--28502720 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
28502486 TCGAATGATG
* * * *
28502496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
28502536 TCCGGAATAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28502576 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
28502615 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28502655 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28502696 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28502721 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28502742 original size:119 final size:119
Alignment explanation
Indices: 28502503--28502753 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
28502493 ATGTCCGGGC
*
28502503 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGAATAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGAATAAGATCCGAAGGCATTTGTGCGAG
* ** *
28502568 ATACTAATTCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAAATCTGGGT
66 ATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATCTCGGT
* * * **
28502622 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGAATAAGAT-CCGAAGGCATTTGTGCG
* * * *
28502685 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-CTAAATCTCGGT
* *
28502741 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
28502754 TACGTGATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 78 0.70
120 30 0.27
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGAATAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATCTCGGT
Found at i:28511607 original size:46 final size:47
Alignment explanation
Indices: 28511555--28511720 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 47
28511545 ACCCGCCCAG
* *
28511555 AAGTGAACTCAGACTCAACTCAACAAGCTCAGG-CGTTCACATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCAGGACGTTCACATCCAT
*
28511601 AAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACATCTC-T
1 AAGTGAACTCGGACTCAACTCAACGAGCTCAG--GAC--GTTCACATC-CAT
* * * *
28511651 ---CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCAGGACGTTCACATCCAT
28511694 AAGTGAACTCGGACTCAACTCAACGAG
1 AAGTGAACTCGGACTCAACTCAACGAG
28511721 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
46 54 0.53
47 25 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (47 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCAGGACGTTCACATCCAT
Found at i:28511691 original size:93 final size:93
Alignment explanation
Indices: 28511559--28511730 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
28511549 GCCCAGAAGT
*
28511559 GAACTCAGACTCAACTCAACAAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCAGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
28511624 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* * * *
28511652 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACAAGCTCAGG-CATTCACATCCATAAGTGAACTCGGACTCAACTCA
* *
28511716 ACGAGTTCGGATGCC
65 ACGAGCTCAGATGCC
28511731 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCAGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:28511745 original size:46 final size:44
Alignment explanation
Indices: 28511602--28511745 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
28511592 CACATCCATA
* * *
28511602 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
28511651 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
28511694 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
28511741 AGTGA
1 AGTGA
28511746 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:28516177 original size:44 final size:44
Alignment explanation
Indices: 28516128--28516263 Score: 272
Period size: 44 Copynumber: 3.1 Consensus size: 44
28516118 TTATTAATTA
28516128 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
28516172 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
28516216 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
28516260 TAAC
1 TAAC
28516264 ATTCCACTAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 92 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (44 bp):
TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
Found at i:28522312 original size:29 final size:29
Alignment explanation
Indices: 28522279--28522336 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
28522269 AGTTTTTGGT
28522279 TATGCTTTTCGGATTAACAAATGCACCTA
1 TATGCTTTTCGGATTAACAAATGCACCTA
*
28522308 TATGCTTTTTGGATTAACAAATGCACCTA
1 TATGCTTTTCGGATTAACAAATGCACCTA
28522337 CTATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (29 bp):
TATGCTTTTCGGATTAACAAATGCACCTA
Found at i:28522349 original size:29 final size:28
Alignment explanation
Indices: 28522283--28522351 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
28522273 TTTGGTTATG
*
28522283 CTTTTCGGATTAACAAATGCACCTATAT
1 CTTTTTGGATTAACAAATGCACCTATAT
28522311 GCTTTTTGGATTAACAAATGCACCTACTAT
1 -CTTTTTGGATTAACAAATGCACCTA-TAT
28522341 -TTTTATGGATT
1 CTTTT-TGGATT
28522352 TGATTAATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 4 0.11
29 30 0.81
30 3 0.08
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (28 bp):
CTTTTTGGATTAACAAATGCACCTATAT
Found at i:28526674 original size:40 final size:40
Alignment explanation
Indices: 28526626--28526853 Score: 411
Period size: 40 Copynumber: 5.7 Consensus size: 40
28526616 GCAAACACAT
* * *
28526626 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28526666 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28526706 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28526746 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28526786 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28526826 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
28526854 TCCAATGCTC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:28531667 original size:93 final size:93
Alignment explanation
Indices: 28531508--28531679 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
28531498 GCCCATAAGT
* * *
28531508 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACACCCAGGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACACCCAGAAGTGAACTCGGACTCAACTCAA
28531573 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** * *
28531601 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACACCCAGAAGTGAACTCGGACTCAACTCAA
28531666 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
28531680 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACACCCAGAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:28531668 original size:46 final size:46
Alignment explanation
Indices: 28531500--28531675 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
28531490 TGTAACCCGC
* * * * *
28531500 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
** *
28531546 CCAGGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACAT
* * *
28531596 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
28531639 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
28531676 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 1 0.01
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:28531694 original size:46 final size:46
Alignment explanation
Indices: 28531551--28531694 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
28531541 CACACCCAGG
* * *
28531551 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
28531599 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
28531644 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
28531690 AGTGA
1 AGTGA
28531695 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 34 0.44
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:28534111 original size:30 final size:30
Alignment explanation
Indices: 28534066--28534154 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
28534056 AAAAGATAAC
28534066 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
28534095 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
28534125 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
28534155 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:28534114 original size:15 final size:15
Alignment explanation
Indices: 28534066--28534145 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
28534056 AAAAGATAAC
*
28534066 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
28534080 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
28534095 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
28534110 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
28534125 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
28534140 AAGAAA
1 AAGAAA
28534146 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:28534154 original size:15 final size:15
Alignment explanation
Indices: 28534077--28534154 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
28534067 AGAAAACCGA
28534077 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
28534092 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
28534106 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
28534121 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
28534137 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
28534152 ATA
1 ATA
28534155 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:28537167 original size:46 final size:46
Alignment explanation
Indices: 28537095--28537223 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
28537085 TGTAACCCGC
* *
28537095 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGA-TCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-ATTCACAT
* * * **
28537141 CCATGAGTGAAATCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
28537187 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
28537224 TGCCCAAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 71 0.99
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:28537241 original size:46 final size:44
Alignment explanation
Indices: 28537099--28537242 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
28537089 ACCCGCCCAT
* * * *
28537099 AAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGATCACATCC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCA-AATATCC
* * **
28537143 ATGAGTGAAATCAGACTCAACTCAACGAGTTCGGA--CATTTGCATCC
1 A--AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCAAAT--ATCC
28537189 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
1 --AAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-CCAAATATCC
28537237 AAGTGA
1 AAGTGA
28537243 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 68 0.87
48 5 0.06
50 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (44 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCAAATATCC
Found at i:28540694 original size:19 final size:19
Alignment explanation
Indices: 28540672--28540708 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28540662 CATTATACAA
28540672 TTTAAATGATTTTAAAAAT
1 TTTAAATGATTTTAAAAAT
**
28540691 TTTAAATTTTTTTAAAAA
1 TTTAAATGATTTTAAAAA
28540709 GTATGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAAATGATTTTAAAAAT
Found at i:28540717 original size:20 final size:19
Alignment explanation
Indices: 28540681--28540720 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
28540671 ATTTAAATGA
* *
28540681 TTTTAAAAATTTTAAATTT
1 TTTTAAAAATATGAAATTT
28540700 TTTTAAAAAGTATGAAATTT
1 TTTTAAAAA-TATGAAATTT
28540720 T
1 T
28540721 AAATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATATGAAATTT
Found at i:28541809 original size:7 final size:7
Alignment explanation
Indices: 28541769--28541808 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
28541759 TTTTCCATTT
28541769 TCAATCC
1 TCAATCC
28541776 TCAATCC
1 TCAATCC
28541783 TCAATCC
1 TCAATCC
28541790 TCAATCC
1 TCAATCC
* *
28541797 TTAATTC
1 TCAATCC
28541804 TCAAT
1 TCAAT
28541809 TTTCAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (7 bp):
TCAATCC
Found at i:28541814 original size:21 final size:21
Alignment explanation
Indices: 28541765--28541815 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
28541755 CCAATTTTCC
28541765 ATTTTCAATCCTCAATCCTCA
1 ATTTTCAATCCTCAATCCTCA
** * *
28541786 ATCCTCAATCCTTAATTCTCA
1 ATTTTCAATCCTCAATCCTCA
28541807 ATTTTCAAT
1 ATTTTCAAT
28541816 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTTCAATCCTCAATCCTCA
Found at i:28541816 original size:14 final size:14
Alignment explanation
Indices: 28541768--28541815 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
28541758 ATTTTCCATT
28541768 TTCAATCCTCAATC
1 TTCAATCCTCAATC
*
28541782 CTCAATCCTCAATCC
1 TTCAATCCTCAAT-C
* *
28541797 TT-AATTCTCAATT
1 TTCAATCCTCAATC
28541810 TTCAAT
1 TTCAAT
28541816 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (14 bp):
TTCAATCCTCAATC
Found at i:28541875 original size:20 final size:20
Alignment explanation
Indices: 28541837--28541875 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28541827 CAGTTTTTGA
*
28541837 ATTTTATTCTCTTTGATTTT
1 ATTTTATTCTCTTTCATTTT
28541857 ATTTTATTC-CTTATCATTT
1 ATTTTATTCTCTT-TCATTT
28541876 GTAAAATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTTATTCTCTTTCATTTT
Found at i:28544564 original size:27 final size:27
Alignment explanation
Indices: 28544532--28544586 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
28544522 AGCTTGAAAA
28544532 CCCTAGCAATGGAAATCCTTGAAGTTT
1 CCCTAGCAATGGAAATCCTTGAAGTTT
28544559 CCCTAGCAATGGAAATCCTTGAAGTTT
1 CCCTAGCAATGGAAATCCTTGAAGTTT
28544586 C
1 C
28544587 GGCTGGATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (27 bp):
CCCTAGCAATGGAAATCCTTGAAGTTT
Found at i:28547540 original size:27 final size:27
Alignment explanation
Indices: 28547521--28547620 Score: 112
Period size: 27 Copynumber: 3.6 Consensus size: 27
28547511 ATATATTAAG
*
28547521 TCCGCACACTCAGTGCTATATAATCAA
1 TCCGCACACTTAGTGCTATATAATCAA
28547548 -CTCGCACACTTAGTGCTATATAATCAA
1 TC-CGCACACTTAGTGCTATATAATCAA
* * *
28547575 ACTCGCACACTTAGTGCTATACAATTTAAA
1 TC-CGCACACTTAGTGCTATATAA--TCAA
*
28547605 CCCGCACACTTAGTGC
1 TCCGCACACTTAGTGC
28547621 CAATCTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
26 1 0.02
27 24 0.37
28 22 0.34
29 14 0.22
30 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (27 bp):
TCCGCACACTTAGTGCTATATAATCAA
Found at i:28547586 original size:28 final size:28
Alignment explanation
Indices: 28547523--28547620 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
28547513 ATATTAAGTC
*
28547523 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
28547550 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
28547578 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
28547607 CGCACACTTAGTGC
1 CGCACACTTAGTGC
28547621 CAATCTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 22 0.34
28 24 0.37
29 19 0.29
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:28576051 original size:46 final size:47
Alignment explanation
Indices: 28575940--28576092 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
28575930 TCCTTCGGGA
*
28575940 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
28575987 CTTATCACATATATACACTTTCACATTCATCACATTTGCC-TTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28576033 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28576080 CTTATCACATATA
1 CTTATCACATATA
28576093 CATATCTTGT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
46 43 0.44
47 55 0.56
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28577962 original size:13 final size:13
Alignment explanation
Indices: 28577944--28577968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28577934 TACTAAATTT
28577944 TCATGGATTCAAA
1 TCATGGATTCAAA
28577957 TCATGGATTCAA
1 TCATGGATTCAA
28577969 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:28583104 original size:68 final size:69
Alignment explanation
Indices: 28582957--28583112 Score: 160
Period size: 68 Copynumber: 2.2 Consensus size: 69
28582947 TAGCCGATTT
* * * *
28582957 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGCGACCTAGCTACATA
*
28583022 TATC
66 TATA
* *
28583026 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-T-GTATCACACATGTGACCTAGCTAC
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGGAATCACACATGCGACCTAGCTAC
28583087 TATATAGTA
63 -ATATA-TA
28583096 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
28583113 ACACATGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (69 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGCGACCTAGCTACATA
TATA
Found at i:28589989 original size:13 final size:13
Alignment explanation
Indices: 28589971--28590010 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
28589961 GCTCGGCAGG
28589971 GACACGCCTGTGT
1 GACACGCCTGTGT
*
28589984 GACACGCCCGTGT
1 GACACGCCTGTGT
*
28589997 GACACGCTTGTGT
1 GACACGCCTGTGT
28590010 G
1 G
28590011 CGATTACTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:28593163 original size:16 final size:16
Alignment explanation
Indices: 28593142--28593184 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
28593132 GAAATTTCTA
28593142 TAAATTTTTTGAATTT
1 TAAATTTTTTGAATTT
* *
28593158 TAAATTTTATAAATTT
1 TAAATTTTTTGAATTT
* *
28593174 GAAATTATTTG
1 TAAATTTTTTG
28593185 TTGACATAGC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (16 bp):
TAAATTTTTTGAATTT
Found at i:28600385 original size:27 final size:27
Alignment explanation
Indices: 28600355--28600532 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
28600345 ATATTGAGCC
* *
28600355 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
28600382 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
28600409 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * **
28600437 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
28600464 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
28600491 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
28600518 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28600533 GTACAGTTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:28600494 original size:82 final size:81
Alignment explanation
Indices: 28600381--28600531 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
28600371 TATAATCAAC
* *
28600381 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
28600446 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* ** *
28600463 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
28600527 AGTGC
65 AGTGC
28600532 TGTACAGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGATCATT
Found at i:28608660 original size:27 final size:27
Alignment explanation
Indices: 28608634--28608759 Score: 148
Period size: 27 Copynumber: 4.6 Consensus size: 27
28608624 ACGTAATCAA
*
28608634 ATCGCACACTTAGTGCTACATAGTCAA
1 ATCGCACACTTAGTGCTACATAGTCAT
**
28608661 ACTCGCACACTTAGTGCCGCAT-GATCAT
1 A-TCGCACACTTAGTGCTACATAG-TCAT
* *
28608689 TTCGCACACTTAGTGC-ATCATATTCAT
1 ATCGCACACTTAGTGCTA-CATAGTCAT
* *
28608716 TTCGCACACTTAGTGCAACATAGTCAT
1 ATCGCACACTTAGTGCTACATAGTCAT
28608743 ATCGCACACTTAGTGCT
1 ATCGCACACTTAGTGCT
28608760 GTACAGTTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
27 63 0.74
28 22 0.26
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (27 bp):
ATCGCACACTTAGTGCTACATAGTCAT
Found at i:28613946 original size:50 final size:50
Alignment explanation
Indices: 28613829--28614170 Score: 434
Period size: 50 Copynumber: 6.7 Consensus size: 50
28613819 ACATGCCAAA
* ** * *
28613829 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGGTGCCCAT
* * *
28613880 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCCAT
* *
28613930 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCCAT
*
28613980 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCCAT
*
28614030 GCCATGTCCCAGATATGGTCTTACAGGGGACCTCTCATCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCCAT
* * * * *
28614080 GTCATGTCCCAGACATGGTCTTACAAGGGACCTCTAATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG-TGCCCAT
* *
28614136 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
28614171 TTAGCCAAAT
Statistics
Matches: 259, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.00
50 185 0.71
51 28 0.11
53 5 0.02
54 1 0.00
55 2 0.01
56 37 0.14
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCCAT
Found at i:28614101 original size:150 final size:155
Alignment explanation
Indices: 28613821--28614170 Score: 496
Period size: 150 Copynumber: 2.3 Consensus size: 155
28613811 TAATAATAAC
* **
28613821 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
*
28613886 TCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
65 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
* *
28613951 TACATGGGACCTCT-CG-TC-T-CGG
130 TACAAGGGACCTCTACGATCTTAAGG
* * *
28613973 -TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
* * * *
28614036 TCCCAGATATGGTCTTACAGGGGACCTCTCATCTCGGTGCCCATGTCATGTCCCAGACATGGTCT
65 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
*
28614101 TACAAGGGACCTCTAATGATCTTAAGG
130 TACAAGGGACCTCT-ACGATCTTAAGG
*
28614128 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
28614171 TTAGCCAAAT
Statistics
Matches: 174, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
149 1 0.01
150 94 0.54
151 34 0.20
152 1 0.01
153 2 0.01
154 1 0.01
155 2 0.01
156 39 0.22
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (155 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
ACAAGGGACCTCTACGATCTTAAGG
Found at i:28614286 original size:13 final size:13
Alignment explanation
Indices: 28614265--28614296 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
28614255 GCTTGGATCA
*
28614265 TCATCAAATAAAT
1 TCATAAAATAAAT
28614278 TCATAAAATAAAT
1 TCATAAAATAAAT
28614291 TCATAA
1 TCATAA
28614297 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:28630936 original size:220 final size:220
Alignment explanation
Indices: 28630554--28630995 Score: 875
Period size: 220 Copynumber: 2.0 Consensus size: 220
28630544 TACTAAGCCC
28630554 ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
1 ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
28630619 GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
66 GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
*
28630684 AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAATAAATG
131 AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAACAAATG
28630749 AAATCTGTAGACTTGTATGAGAGTT
196 AAATCTGTAGACTTGTATGAGAGTT
28630774 ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
1 ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
28630839 GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
66 GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
28630904 AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAACAAATG
131 AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAACAAATG
28630969 AAATCTGTAGACTTGTATGAGAGTT
196 AAATCTGTAGACTTGTATGAGAGTT
28630994 AT
1 AT
28630996 GAAAATTCAG
Statistics
Matches: 221, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 221 1.00
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (220 bp):
ATACCTCAATTTCAAATTTTGATGATGATTTTGAAATATGCCATGGATGAATTCATGAGTTTTGT
GATGTTATATGTTGAAATATGAAAGTTTGATGTTGGGTTTACATGTTGTCTTTGGATTTTTGATG
AATTTGAGTAATTTGGACTAAATTGTGAAAATAAGAAATTGAGGGACTAAAATATGAAACAAATG
AAATCTGTAGACTTGTATGAGAGTT
Found at i:28635160 original size:12 final size:12
Alignment explanation
Indices: 28635143--28635173 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
28635133 TCCTAAAATT
28635143 AATTTCTATTGA
1 AATTTCTATTGA
28635155 AATTTCTATTGA
1 AATTTCTATTGA
28635167 AATTTCT
1 AATTTCT
28635174 TGATAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (12 bp):
AATTTCTATTGA
Found at i:28641730 original size:28 final size:28
Alignment explanation
Indices: 28641699--28641794 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 28
28641689 ATTTATTTTA
28641699 TATATCTAACTAAAAATAATTTAAAAAC
1 TATATCTAACTAAAAATAATTTAAAAAC
* * * * *
28641727 TATAAAAATATTCAAAAATAATAATAATTCAAAAAA
1 --T----ATA-TC-TAACTAAAAATAATTTAAAAAC
*
28641763 TATATCTAACCAAAAATAATTTAAAAAC
1 TATATCTAACTAAAAATAATTTAAAAAC
28641791 TATA
1 TATA
28641795 AAAATATTCA
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
28 20 0.41
29 2 0.04
30 4 0.08
34 4 0.08
35 2 0.04
36 17 0.35
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (28 bp):
TATATCTAACTAAAAATAATTTAAAAAC
Found at i:28641750 original size:19 final size:20
Alignment explanation
Indices: 28641709--28641766 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
28641699 TATATCTAAC
*
28641709 TAAAAATAATTTAAAAACTA
1 TAAAAATAATTCAAAAACTA
28641729 TAAAAAT-ATTC-AAAA--A
1 TAAAAATAATTCAAAAACTA
* *
28641745 TAATAATAATTCAAAAAATA
1 TAAAAATAATTCAAAAACTA
28641765 TA
1 TA
28641767 TCTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 7 0.22
17 4 0.12
18 8 0.25
19 3 0.09
20 10 0.31
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAATAATTCAAAAACTA
Found at i:28641752 original size:16 final size:17
Alignment explanation
Indices: 28641709--28641761 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
28641699 TATATCTAAC
*
28641709 TAAAAATAATTTAAAAA
1 TAAAAATAATTCAAAAA
28641726 CTATAAAA-ATATTCAAAAA
1 -TA-AAAATA-ATTCAAAAA
*
28641745 TAATAATAATTCAAAAA
1 TAAAAATAATTCAAAAA
28641762 ATATATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.40
18 6 0.20
19 12 0.40
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAATAATTCAAAAA
Found at i:28655216 original size:35 final size:35
Alignment explanation
Indices: 28655170--28655239 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
28655160 AATTTTCAGT
28655170 TTTCCCATTTTTCCAATAAAGGCCACCAACTTGCG
1 TTTCCCATTTTTCCAATAAAGGCCACCAACTTGCG
*
28655205 TTTCCCATTTTTCCAATAAAGGCCACCAATTTGCG
1 TTTCCCATTTTTCCAATAAAGGCCACCAACTTGCG
28655240 ATATCTTTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (35 bp):
TTTCCCATTTTTCCAATAAAGGCCACCAACTTGCG
Found at i:28656419 original size:27 final size:27
Alignment explanation
Indices: 28656386--28656502 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
28656376 TACTAAAATG
**
28656386 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
28656413 CCTTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
28656440 CCCTCGATTTACAAAATTACCATTGTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
28656467 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
28656494 CCCTCGATT
1 CCCTCGATT
28656503 GTGAAATTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 76 0.97
28 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:28656448 original size:54 final size:54
Alignment explanation
Indices: 28656386--28656502 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 54
28656376 TACTAAAATG
** * * * *
28656386 CCCTCGATTTGTAGAATTACCATTTTACCTTC-GATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTGTACCCTCAG-TTTACAAAATTACCGTTTTA
28656440 CCCTCGATTTACAAAATTACCATTGTACCCTCAGTTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTGTACCCTCAGTTTACAAAATTACCGTTTTA
28656494 CCCTCGATT
1 CCCTCGATT
28656503 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 55 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCATTGTACCCTCAGTTTACAAAATTACCGTTTTA
Found at i:28656572 original size:53 final size:53
Alignment explanation
Indices: 28656506--28656628 Score: 140
Period size: 53 Copynumber: 2.3 Consensus size: 53
28656496 CTCGATTGTG
* * * *
28656506 AAATTACTGAAATACCCTTGTAGGATAGAATTACCAAAATACCCCTAGTCTGTA
1 AAATTACAGAAATACCCTAGTAGG-TAAAATTACCAAAATACCCCTAATCTGTA
* ** * *
28656560 AAATTAC-CAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAATTTGTA
1 AAATTACAGAAATA-CCCTAGTAGGTAAAATTACCAAAATACCCCTAATCTGTA
28656613 AAATTACAGAAATACC
1 AAATTACAGAAATACC
28656629 ATTGGTTTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 39 0.67
54 19 0.33
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (53 bp):
AAATTACAGAAATACCCTAGTAGGTAAAATTACCAAAATACCCCTAATCTGTA
Found at i:28656577 original size:26 final size:27
Alignment explanation
Indices: 28656534--28656685 Score: 177
Period size: 27 Copynumber: 5.7 Consensus size: 27
28656524 TGTAGGATAG
*
28656534 AATTACCAAAATACCCCTAGTCTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
28656561 AATTACC-AAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
28656587 AATTATCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * *
28656614 AATTA-CAGAAATACCATTGGTTTGTGA
1 AATTACCA-AAATACCCCTAGTTTGTAA
* *
28656641 AATTACCGAAATA-CCCTCAATTTG-AA
1 AATTACCAAAATACCCCT-AGTTTGTAA
28656667 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
28656686 ATTTACAAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
26 42 0.40
27 62 0.59
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:28656618 original size:80 final size:80
Alignment explanation
Indices: 28656534--28656689 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 80
28656524 TGTAGGATAG
* * *
28656534 AATTACCA-AAATACCCCTAGTCTGTAAAATTACC-AAATACCC-CTAGTTTGTAAAATTATCAA
1 AATTA-CAGAAATACCACTAGTCTGTAAAATTACCGAAATACCCTC-AATTTG-AAAATTACCAA
28656596 AATACCCCTAATTTGTAA
63 AATACCCCTAATTTGTAA
* * * *
28656614 AATTACAGAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGAAAATTACCAAAAT
1 AATTACAGAAATACCACTAGTCTGTAAAATTACCGAAATACCCTCAATTTGAAAATTACCAAAAT
28656679 ACCCCTAATTT
66 ACCCCTAATTT
28656690 ACAAAACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
79 2 0.03
80 50 0.76
81 13 0.20
82 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AATTACAGAAATACCACTAGTCTGTAAAATTACCGAAATACCCTCAATTTGAAAATTACCAAAAT
ACCCCTAATTTGTAA
Found at i:28656706 original size:80 final size:80
Alignment explanation
Indices: 28656560--28656708 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
28656550 CTAGTCTGTA
* * ** * *
28656560 AAATTACCAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAATTTGTAAAATTACAGAAA
1 AAATTACCAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAACTACAAAAA
28656625 TACCATTGGTTTGTG
66 TACCATTGGTTTGTG
*
28656640 AAATTACCGAAATA-CCCTCAATTTG-AAAATTACCAAAATACCCCTAATTTACAAAACTATAAA
1 AAATTACC-AAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAACTACAAA
28656703 AATACC
64 AATACC
28656709 CTTAACTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 50 0.83
81 10 0.17
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (80 bp):
AAATTACCAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAACTACAAAAA
TACCATTGGTTTGTG
Found at i:28656760 original size:27 final size:26
Alignment explanation
Indices: 28656717--28656772 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
28656707 CCCTTAACTT
*
28656717 TTTAAAAATTATAGAAATATCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
28656743 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
28656770 TTT
1 TTT
28656773 GTAGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:28656890 original size:27 final size:27
Alignment explanation
Indices: 28656813--28656890 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
28656803 AAATGACTAA
* *
28656813 AATACCCTT-AATAGGTAAAAAGACCGT
1 AATACCCTTGTAT-GGTAAAATGACCGT
* * *
28656840 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCTTGTATGGTAAAATGACCGT
28656867 AATACCCTTGTATGGTAAAATGAC
1 AATACCCTTGTATGGTAAAATGAC
28656891 GAATATGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCTTGTATGGTAAAATGACCGT
Found at i:28657738 original size:25 final size:25
Alignment explanation
Indices: 28657698--28657769 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
28657688 GGAGGAAGTG
*
28657698 CAAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* *
28657723 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
28657748 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
28657770 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:28657782 original size:24 final size:25
Alignment explanation
Indices: 28657700--28657782 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
28657690 AGGAAGTGCA
* *
28657700 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
28657724 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
*
28657749 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
28657773 AAAAGAGGCT
1 AAAAGAGGCT
28657783 AGTCCTCCAG
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
24 16 0.31
25 36 0.69
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:28658096 original size:33 final size:29
Alignment explanation
Indices: 28658021--28658098 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
28658011 TGATTTATGA
* * *
28658021 AAAGGCTCTGGCCCAATAACTGTTAAACG
1 AAAGGCTTTGGCCCAGTAAATGTTAAACG
*
28658050 AAAGGCTTCGGCCCAGTAAATGTATAAACTG
1 AAAGGCTTTGGCCCAGTAAATGT-TAAAC-G
28658081 AATAGGGCTTTGGCCCAG
1 AA-A-GGCTTTGGCCCAG
28658099 ATTGTACTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 19 0.47
30 5 0.12
31 3 0.08
32 1 0.03
33 12 0.30
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (29 bp):
AAAGGCTTTGGCCCAGTAAATGTTAAACG
Found at i:28660344 original size:27 final size:27
Alignment explanation
Indices: 28660314--28660396 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 27
28660304 ATCGAGACTA
*
28660314 TAAACACGGGGTAGTTTACCGGGACAG
1 TAAACACGGGGTAGTCTACCGGGACAG
* * * * *
28660341 TAAATATGGGGTAATCTACTGGAACAG
1 TAAACACGGGGTAGTCTACCGGGACAG
** *
28660368 TAAACACGATGTAGTCTACCAGGACAG
1 TAAACACGGGGTAGTCTACCGGGACAG
28660395 TA
1 TA
28660397 TAAATGGGGA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (27 bp):
TAAACACGGGGTAGTCTACCGGGACAG
Found at i:28664202 original size:270 final size:270
Alignment explanation
Indices: 28663721--28664286 Score: 810
Period size: 270 Copynumber: 2.1 Consensus size: 270
28663711 GTGCAGACTT
* * * * * * * * *
28663721 CACACGGCCTAAACACAAGCCCCTGTCCTTTCACACGGCCTTAACAAGCCTGTGGCGCAACCCGT
1 CACACGGCTTAGACACACGCCCGTGTCCTTTCACACAGCCTCAACAAGCCCGTGGCACAACCCAT
*
28663786 GTGCAAAAACCTAAGTATTCTATTTCTAACGTCAGCATCACACGACCATGGTACACGCCCGTGTA
66 GTGCAAAAACCTAAGTATTATATTTCTAACGTCAGCATCACACGACCATGGTACACGCCCGTGTA
* * ** *
28663851 CTAGGCCGTGCCCTTCACACGGCTGAGACACACAACTGTGTCTCTACCCGTGTGATCCTTACCAT
131 CTAGGACGTGCCCTCCACACAACTAAGACACACAACTGTGTCTCTACCCGTGTGATCCTTACCAT
*
28663916 GCATTTTGACTTGAAATTTCTAGGTGCAGGGGACACACGACCTTCTCACACGCCCATAGGGCTGA
196 GCATTCTGACTTGAAATTTCTAGGTGCAGGGGACACACGACCTTCTCACACGCCCATAGGGCTGA
*
28663981 TCGTGTGTCA
261 CCGTGTGTCA
*
28663991 CACACGGCTTAGACACACGCCCGTGTCCTTTCACACAGCCTCAACACGCCCGTGGCACAACCCAT
1 CACACGGCTTAGACACACGCCCGTGTCCTTTCACACAGCCTCAACAAGCCCGTGGCACAACCCAT
** * * * **
28664056 GTGCAAAAACCTGGGTATTATGTTTCTAACGTCAGCATCACACGTCCATGGTACATGCTTGTGTA
66 GTGCAAAAACCTAAGTATTATATTTCTAACGTCAGCATCACACGACCATGGTACACGCCCGTGTA
* ** **
28664121 CTAGGACGTGCCCTCCACACAACTAAGACATAC-GGTCGTGTCTCTACTTGTGTGATCCTTACCA
131 CTAGGACGTGCCCTCCACACAACTAAGACACACAACT-GTGTCTCTACCCGTGTGATCCTTACCA
* * *
28664185 TGCATTCTGACTTGAAATTTCTAGGTGCAGGGGACACACGGCCTTCTCACACGCTCATGGGGCTG
195 TGCATTCTGACTTGAAATTTCTAGGTGCAGGGGACACACGACCTTCTCACACGCCCATAGGGCTG
28664250 ACCGTGTGTCA
260 ACCGTGTGTCA
*
28664261 TACACGGCTTAGACACACGCCCGTGT
1 CACACGGCTTAGACACACGCCCGTGT
28664287 GTCTACCCGT
Statistics
Matches: 261, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
269 1 0.00
270 260 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (270 bp):
CACACGGCTTAGACACACGCCCGTGTCCTTTCACACAGCCTCAACAAGCCCGTGGCACAACCCAT
GTGCAAAAACCTAAGTATTATATTTCTAACGTCAGCATCACACGACCATGGTACACGCCCGTGTA
CTAGGACGTGCCCTCCACACAACTAAGACACACAACTGTGTCTCTACCCGTGTGATCCTTACCAT
GCATTCTGACTTGAAATTTCTAGGTGCAGGGGACACACGACCTTCTCACACGCCCATAGGGCTGA
CCGTGTGTCA
Found at i:28665027 original size:49 final size:46
Alignment explanation
Indices: 28664950--28665267 Score: 256
Period size: 47 Copynumber: 6.8 Consensus size: 46
28664940 AGGATAAGTT
*
28664950 GCCGATGCCATGTCCCAGACATGATCTTACACTGGCTATTATCATCGAG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGGC-ATCATCATCGAG
* * * *
28664999 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTAT-ATACG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATC--ATCAT-CGAG
* * * *
28665049 GCTGATGCATGTCCCAGACATGTCTTACACTAGCA-CAAC-TCTTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCATC-GAG
* * * * *
28665093 GCCGATGCATGTCCCAAACACGTCTTACATTGGCTACCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCATCGAG
* * *
28665140 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATC-TCTAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCATCGAG
* * *
28665186 GCCGATGCCATGTCCCAGACATGGTCTTATAC-GGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCATCATCGAG
*
28665233 GCTGATGCATGTCCCAGACATGTCTTACACTGGCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA
28665268 CTTATCTCTA
Statistics
Matches: 221, Mismatches: 32, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.00
44 31 0.14
45 9 0.04
46 34 0.15
47 64 0.29
48 21 0.10
49 48 0.22
50 9 0.04
51 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCATCGAG
Found at i:28665260 original size:93 final size:91
Alignment explanation
Indices: 28664953--28665287 Score: 320
Period size: 93 Copynumber: 3.5 Consensus size: 91
28664943 ATAAGTTGCC
* * *
28664953 GATGCCATGTCCCAGACATGATCTTACACTGGCTATTATCATCGAGGCCGATGCCATGTCCCAGA
1 GATG-CATGTCCCAGACATG-TCTTACACTAGC-ATCATC-TCTA-GCCGATGCCATGTCCCAGA
* * *
28665018 CATGGTCTTATACTAGCTCTCGTATATACGT-GCT
61 CATGGTCTTATAC-GGCACTC--ATA-ATGTGGCT
* * *
28665052 GATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCTTAGCCGATG-CATGTCCCAAACA-C
1 GATGCATGTCCCAGACATGTCTTACACTAGCATCATCTC-TAGCCGATGCCATGTCCCAGACATG
* * ** * *
28665114 GTCTTACATTGGCTAC-CATCGTCGAGGCC
65 GTCTTATA-CGGC-ACTCATAAT-GTGGCT
28665143 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCTA-GCCGATGCCATGTCCCAGACAT
28665208 GGTCTTATACGGCACTCATAATGTGGCT
64 GGTCTTATACGGCACTCATAATGTGGCT
* * *
28665236 GATGCATGTCCCAGACATGTCTTACACTGGCACTTATCTCTATGTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCTA-GCCGATGCC
28665288 TTACACTGGC
Statistics
Matches: 197, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
90 3 0.02
91 34 0.17
92 12 0.06
93 79 0.40
94 28 0.14
95 10 0.05
96 1 0.01
97 11 0.06
98 15 0.08
99 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCTAGCCGATGCCATGTCCCAGACATGG
TCTTATACGGCACTCATAATGTGGCT
Found at i:28665360 original size:47 final size:46
Alignment explanation
Indices: 28665287--28665486 Score: 203
Period size: 47 Copynumber: 4.3 Consensus size: 46
28665277 ATGTCGATGC
*
28665287 CTTACACTGGCACTCATAAT-GTGGCCGATGCATGTCCCAGACATGT
1 CTTACACTGGCACTCAT-CTCGTGGCCGATGCATGTCCCAGACATGT
* * * *
28665333 CTTACACGGGCTA-TCATCGTCGTGGCCGATACATGTCCCAGAGACGT
1 CTTACACTGGC-ACTCATC-TCGTGGCCGATGCATGTCCCAGACATGT
* *
28665380 CTTACACTAGCACTCATCTC-TACGCCGATGCCATGTCCCAGACATTGT
1 CTTACACTGGCACTCATCTCGT-GGCCGATG-CATGTCCCAGACA-TGT
* * *
28665428 CTTACACTGGCACTCATAAT-GTGG-CAATTGCATGTCCCAAACATGT
1 CTTACACTGGCACTCAT-CTCGTGGCCGA-TGCATGTCCCAGACATGT
28665474 CTTACACTGGCAC
1 CTTACACTGGCAC
28665487 ATAAGTAATC
Statistics
Matches: 128, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 40 0.31
47 64 0.50
48 21 0.16
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
CTTACACTGGCACTCATCTCGTGGCCGATGCATGTCCCAGACATGT
Found at i:28665383 original size:124 final size:124
Alignment explanation
Indices: 28665186--28665411 Score: 305
Period size: 124 Copynumber: 1.8 Consensus size: 124
28665176 TCATCTCTAC
* * *
28665186 GCCGATGCCATGTCCCAGACATGGTCTTATACGGCACTCATAATGTGGCTGATGCATGTCCCAGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACGGCACTCATAATGTGGCCGATACATGTCCCAGA
* * * * *
28665251 CATGTCTTACACTGGCACTTATCTCTATGTCGATGCCTTACACTGGCACTCATAATGTG
66 CACGTCTTACACTAGCACTCATCTCTACGCCGATGCCTTACACTGGCACTCATAATGTG
**
28665310 GCCGATG-CATGTCCCAGACAT-GTCTTACACGGGCTA-TCATCGTCGTGGCCGATACATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC-GGC-ACTCATAAT-GTGGCCGATACATGTCCC
*
28665372 AGAGACGTCTTACACTAGCACTCATCTCTACGCCGATGCC
63 AGACACGTCTTACACTAGCACTCATCTCTACGCCGATGCC
28665412 ATGTCCCAGA
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
122 8 0.09
123 22 0.25
124 58 0.66
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (124 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACGGCACTCATAATGTGGCCGATACATGTCCCAGA
CACGTCTTACACTAGCACTCATCTCTACGCCGATGCCTTACACTGGCACTCATAATGTG
Found at i:28667969 original size:11 final size:10
Alignment explanation
Indices: 28667951--28667977 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
28667941 TCCAAAATCC
28667951 TCTTTTTTTT
1 TCTTTTTTTT
28667961 TCTTTTTTTT
1 TCTTTTTTTT
28667971 TCTTTTT
1 TCTTTTT
28667978 CCTCCTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:28675396 original size:23 final size:23
Alignment explanation
Indices: 28675365--28675418 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
28675355 TCGAACTCGA
* *
28675365 AACTCGAATTACT-TATTCAAGTT
1 AACTCGAATAACTCAATTCAA-TT
*
28675388 GACTCGAATAACTCAATTCAATT
1 AACTCGAATAACTCAATTCAATT
28675411 AACTCGAA
1 AACTCGAA
28675419 ATTAGAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
AACTCGAATAACTCAATTCAATT
Found at i:28680071 original size:16 final size:15
Alignment explanation
Indices: 28680037--28680072 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
28680027 AAATTTAAAG
28680037 AAAAATGAGTATTGT
1 AAAAATGAGTATTGT
28680052 AAAAATG-GATATTGT
1 AAAAATGAG-TATTGT
28680067 AAAAAT
1 AAAAAT
28680073 ATTAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 1 0.05
15 19 0.95
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
AAAAATGAGTATTGT
Done.