Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002844.1 Hibiscus syriacus cultivar Beakdansim tig00005856_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1090609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:3648 original size:14 final size:14
Alignment explanation
Indices: 3629--3656 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3619 TTCTTGGTTA
3629 TTACCTGAAGAAAT
1 TTACCTGAAGAAAT
3643 TTACCTGAAGAAAT
1 TTACCTGAAGAAAT
3657 ATCAATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TTACCTGAAGAAAT
Found at i:7448 original size:47 final size:45
Alignment explanation
Indices: 7354--7479 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 45
7344 ATAACCATGC
* * * *
7354 AAATAAACTTATGAGCTTACGGAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
* *
7398 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGGAA
7445 AAATAAGCTTACGAGCTTATAGG-ATAAATGGTAAG
1 AAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAG
7480 AGATTTTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
44 21 0.29
45 11 0.15
46 1 0.01
47 37 0.51
48 2 0.03
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
Found at i:9850 original size:24 final size:24
Alignment explanation
Indices: 9755--9850 Score: 65
Period size: 24 Copynumber: 3.9 Consensus size: 24
9745 GCAGCAAATC
9755 ATTAATAATATAATATTGT-ATTGT
1 ATTAATAATATAATATTGTAATT-T
** *
9779 ATTAATAAAATACTAACTATTAAAATAT
1 ATTAAT--AATA-TAA-TATTGTAATTT
* *
9807 -TTAAAAATAT-AT-TTATTAATTT
1 ATTAATAATATAATATT-GTAATTT
9829 ATTAATAATATAATATTGTAAT
1 ATTAATAATATAATATTGTAAT
9851 AGTATACTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
21 2 0.04
22 5 0.09
23 10 0.19
24 13 0.24
25 6 0.11
26 4 0.07
27 7 0.13
28 5 0.09
29 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (24 bp):
ATTAATAATATAATATTGTAATTT
Found at i:10381 original size:16 final size:15
Alignment explanation
Indices: 10332--10382 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
10322 ATATAATTCA
10332 TTTTACATAAAATAAT
1 TTTTAC-TAAAATAAT
*
10348 TTTTA-TCAAATTAA-
1 TTTTACT-AAAATAAT
10362 TTTTACGTAAAATAAT
1 TTTTAC-TAAAATAAT
10378 TTTTA
1 TTTTA
10383 AATAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.21
15 12 0.41
16 11 0.38
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTTACTAAAATAAT
Found at i:10395 original size:30 final size:31
Alignment explanation
Indices: 10324--10410 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 31
10314 TTTTGAAAAT
* *
10324 ATAATTCATTTTACATAAAATAATTTTTATC
1 ATAATTAATTTTACATAAAATAATTTTTATA
*
10355 A-AATTAATTTTACGTAAAATAATTTTTA-A
1 ATAATTAATTTTACATAAAATAATTTTTATA
* * *
10384 ATAATTTATTTTATAT-AAATTATTTTT
1 ATAATTAATTTTACATAAAATAATTTTT
10411 CAAAAATAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.23
30 36 0.75
31 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.52
Consensus pattern (31 bp):
ATAATTAATTTTACATAAAATAATTTTTATA
Found at i:14890 original size:25 final size:25
Alignment explanation
Indices: 14857--14912 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
14847 GTGAGGAAAG
14857 GGGTAATTTACCCTAATTGTATTTA
1 GGGTAATTTACCCTAATTGTATTTA
14882 GGGTAATTTACCCTAATTGTATTTA
1 GGGTAATTTACCCTAATTGTATTTA
14907 GGGTAA
1 GGGTAA
14913 ACTATTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (25 bp):
GGGTAATTTACCCTAATTGTATTTA
Found at i:17791 original size:105 final size:105
Alignment explanation
Indices: 17591--18786 Score: 2047
Period size: 105 Copynumber: 11.4 Consensus size: 105
17581 GTATTGTTCC
* * * * *
17591 GAGTCCAATATCCTCCGCCT-TGAAGTTGAAATTGGTTCTGGAA-CTGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCG-TTGTGAAGTTGAAATTGGCTCT-GAATTTGAGAAA-TGTTTGTTGAC
* * **
17654 AACTAGTC-GTCCCTTCGTCGTGAAATTGAACTTGCGTTCCCTG
63 AACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
17697 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
17762 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
17802 GAATCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
17867 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
17907 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
17972 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
18012 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAATTTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
18077 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
18117 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
* *
18182 CAGCGGTCCCTTCATCGTGAAGTTGAACTCGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
18222 GTGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
18287 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
18327 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
18392 TAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
18432 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
18497 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGCCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
18537 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
* *
18602 CAGCGGCCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
18642 GAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
18707 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
18747 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
18787 GGTAAACACC
Statistics
Matches: 1042, Mismatches: 45, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
105 1001 0.96
106 41 0.04
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:19518 original size:276 final size:276
Alignment explanation
Indices: 19025--19586 Score: 1088
Period size: 276 Copynumber: 2.0 Consensus size: 276
19015 AAGTATGTGC
* *
19025 ATGAGCCTTGATCGGCTTCTGGGTACCTGTACTTTTCAATGAATCCTTGTACAGTAATATGCGAT
1 ATGAGCCTTGATCAGCTTCTGGGCACCTGTACTTTTCAATGAATCCTTGTACAGTAATATGCGAT
19090 TATCTTTTCACCAAAAATAAATAAATCATTAGGTTTAAATCTAATTCAAGATGCTCGAGAGGAAA
66 TATCTTTTCACCAAAAATAAATAAATCATTAGGTTTAAATCTAATTCAAGATGCTCGAGAGGAAA
19155 GATTGTCTTTATTTATAAGGGAGGAGAAAAACAAATGATACATGGCAAACATTCTAGAAAACGAA
131 GATTGTCTTTATTTATAAGGGAGGAGAAAAACAAATGATACATGGCAAACATTCTAGAAAACGAA
19220 TACACAATTATGTGTAAATGAACGTCTTAGATTTCGATAATGTGGGCACTTCTGAGCTGAAAAGT
196 TACACAATTATGTGTAAATGAACGTCTTAGATTTCGATAATGTGGGCACTTCTGAGCTGAAAAGT
*
19285 TGTTTGGTGACCTTGA
261 CGTTTGGTGACCTTGA
19301 ATGAGCCTTGATCAGCTTCTGGGCACCTGTACTTTTCAATGAATCCTTGTACAGTAATATGCGAT
1 ATGAGCCTTGATCAGCTTCTGGGCACCTGTACTTTTCAATGAATCCTTGTACAGTAATATGCGAT
19366 TATCTTTTCACCAAAAATAAATAAATCATTAGGTTTAAATCTAATTCAAGATGCTCGAGAGGAAA
66 TATCTTTTCACCAAAAATAAATAAATCATTAGGTTTAAATCTAATTCAAGATGCTCGAGAGGAAA
19431 GATTGTCTTTATTTATAAGGGAGGAGAAAAACAAATGATACATGGCAAACATTCTAGAAAACGAA
131 GATTGTCTTTATTTATAAGGGAGGAGAAAAACAAATGATACATGGCAAACATTCTAGAAAACGAA
19496 TACACAATTATGTGTAAATGAACGTCTTAGATTTCGATAATGTGGGCACTTCTGAGCTGAAAAGT
196 TACACAATTATGTGTAAATGAACGTCTTAGATTTCGATAATGTGGGCACTTCTGAGCTGAAAAGT
19561 CGTTTGGTGACCTTGA
261 CGTTTGGTGACCTTGA
19577 ATGCAGCCTT
1 ATG-AGCCTT
19587 TGCCAAAGGA
Statistics
Matches: 282, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
276 276 0.98
277 6 0.02
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (276 bp):
ATGAGCCTTGATCAGCTTCTGGGCACCTGTACTTTTCAATGAATCCTTGTACAGTAATATGCGAT
TATCTTTTCACCAAAAATAAATAAATCATTAGGTTTAAATCTAATTCAAGATGCTCGAGAGGAAA
GATTGTCTTTATTTATAAGGGAGGAGAAAAACAAATGATACATGGCAAACATTCTAGAAAACGAA
TACACAATTATGTGTAAATGAACGTCTTAGATTTCGATAATGTGGGCACTTCTGAGCTGAAAAGT
CGTTTGGTGACCTTGA
Found at i:35098 original size:17 final size:17
Alignment explanation
Indices: 35027--35099 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 17
35017 ACTTAAACTA
35027 TACTTAAAATTGATTTTT
1 TACTTAAAATTG-TTTTT
*
35045 TGATGCTTAAAA-AG-TTTT
1 T-A--CTTAAAATTGTTTTT
35063 TA-TTAAAAATATGTTTTT
1 TACTT-AAAAT-TGTTTTT
35081 TACTTAAAATTGTTTTT
1 TACTTAAAATTGTTTTT
35098 TA
1 TA
35100 ATACTTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
14 2 0.04
15 4 0.09
17 11 0.24
18 17 0.38
19 3 0.07
20 1 0.02
21 7 0.16
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.53
Consensus pattern (17 bp):
TACTTAAAATTGTTTTT
Found at i:35115 original size:20 final size:21
Alignment explanation
Indices: 35081--35121 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
35071 ATATGTTTTT
**
35081 TACTTAAAATTGTTTT-TTAA
1 TACTTAAAAAGGTTTTATTAA
35101 TACTTAAAAAGGTTTTATTAA
1 TACTTAAAAAGGTTTTATTAA
35122 AAATATGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (21 bp):
TACTTAAAAAGGTTTTATTAA
Found at i:35154 original size:47 final size:47
Alignment explanation
Indices: 35029--35281 Score: 254
Period size: 47 Copynumber: 5.1 Consensus size: 47
35019 TTAAACTATA
35029 CTTAAAATTGATTTTTTGATGCTTAAAAAGTTTTTATTAAAAATATGTTTTTT
1 CTTAAAATTGA-TTTTTGATGCTTAAAAAGTTTTTATTAAAAATATG-----T
* * * *
35082 ACTTAAAATTGTTTTTTAATACTTAAAAAGGTTTTATTAAAAATATGT
1 -CTTAAAATTGATTTTTGATGCTTAAAAAGTTTTTATTAAAAATATGT
*
35130 CTTAAAATTGAATTTTGATGCTTAAAAAGTTTTTATTAAAAATATGTTTTTTGT
1 CTTAAAATTGATTTTTGATGCTTAAAAAGTTTTTATTAAAAATA-------TGT
* * * * *
35184 ACTTATAATCGATTTTTAATGCTTAAAAAGGTTTTATTAAAAATATAT
1 -CTTAAAATTGATTTTTGATGCTTAAAAAGTTTTTATTAAAAATATGT
* * *
35232 CTTAAAATTGATTTTTGATACTTAAAAAGTTTTTATTAAATATATAT
1 CTTAAAATTGATTTTTGATGCTTAAAAAGTTTTTATTAAAAATATGT
35279 CTT
1 CTT
35282 TTCCCGTGTG
Statistics
Matches: 170, Mismatches: 21, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
47 83 0.49
48 3 0.02
53 32 0.19
54 13 0.08
55 39 0.23
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.49
Consensus pattern (47 bp):
CTTAAAATTGATTTTTGATGCTTAAAAAGTTTTTATTAAAAATATGT
Found at i:35154 original size:100 final size:102
Alignment explanation
Indices: 35025--35276 Score: 402
Period size: 102 Copynumber: 2.5 Consensus size: 102
35015 CTACTTAAAC
35025 TATA-CTTAAAATTGATTTTTTGATGCTTAAAAAGTTTTTATTAAAAATATG-TTTTT-TACTTA
1 TATATCTTAAAATTGA-TTTTTGATGCTTAAAAAGTTTTTATTAAAAATATGTTTTTTGTACTTA
* *
35087 AAATTGTTTTTTAATACTTAAAAAGGTTTTATTAAAAA
65 AAATCGATTTTTAATACTTAAAAAGGTTTTATTAAAAA
* * *
35125 TATGTCTTAAAATTGAATTTTGATGCTTAAAAAGTTTTTATTAAAAATATGTTTTTTGTACTTAT
1 TATATCTTAAAATTGATTTTTGATGCTTAAAAAGTTTTTATTAAAAATATGTTTTTTGTACTTAA
*
35190 AATCGATTTTTAATGCTTAAAAAGGTTTTATTAAAAA
66 AATCGATTTTTAATACTTAAAAAGGTTTTATTAAAAA
* *
35227 TATATCTTAAAATTGATTTTTGATACTTAAAAAGTTTTTATTAAATATAT
1 TATATCTTAAAATTGATTTTTGATGCTTAAAAAGTTTTTATTAAAAATAT
35277 ATCTTTTCCC
Statistics
Matches: 139, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
100 37 0.27
101 16 0.12
102 86 0.62
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.48
Consensus pattern (102 bp):
TATATCTTAAAATTGATTTTTGATGCTTAAAAAGTTTTTATTAAAAATATGTTTTTTGTACTTAA
AATCGATTTTTAATACTTAAAAAGGTTTTATTAAAAA
Found at i:35343 original size:40 final size:40
Alignment explanation
Indices: 35294--35370 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
35284 CCCGTGTGTT
* * *
35294 TATTGTAAAAAAAAATCTGTTATACTTTTAAGCGCTTGCC
1 TATTATAAAAAAAAATATGTTATACGTTTAAGCGCTTGCC
*
35334 TATTATAAAAAAAAATATGTTATACGTTTAAGTGCTT
1 TATTATAAAAAAAAATATGTTATACGTTTAAGCGCTT
35371 ATCGTCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (40 bp):
TATTATAAAAAAAAATATGTTATACGTTTAAGCGCTTGCC
Found at i:36811 original size:23 final size:23
Alignment explanation
Indices: 36760--36804 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36750 AGTTTGAATC
* *
36760 TTAACTATAATATATATATATCA
1 TTAATTATAATATATAAATATCA
36783 TTAATTATAATATAATAAATAT
1 TTAATTATAATAT-ATAAATAT
36805 TATAATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAATTATAATATATAAATATCA
Found at i:37330 original size:17 final size:16
Alignment explanation
Indices: 37308--37343 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37298 TTACCTATAC
37308 TTTTGGGTACCCAAAAT
1 TTTTGGGTA-CCAAAAT
*
37325 TTTTGGGTATCAAAAT
1 TTTTGGGTACCAAAAT
37341 TTT
1 TTT
37344 GGCCCGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (16 bp):
TTTTGGGTACCAAAAT
Found at i:37657 original size:39 final size:39
Alignment explanation
Indices: 37614--37719 Score: 130
Period size: 39 Copynumber: 2.7 Consensus size: 39
37604 TTTAAAAAAT
37614 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATT-GAG
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAG-G
* *
37653 AATTTAGAATGTT-ATGGTGGCAA-AATTTAAGCAATTAGG
1 AATTTAGAATGTTAAT-GT-GAAATAATTTAAGAAATTAGG
37692 AATTTAGAATGTTAGA-GTGAAATAATTT
1 AATTTAGAATGTTA-ATGTGAAATAATTT
37720 GATAATTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
38 5 0.09
39 48 0.83
40 4 0.07
41 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (39 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAGG
Found at i:42012 original size:27 final size:27
Alignment explanation
Indices: 41981--42057 Score: 145
Period size: 27 Copynumber: 2.9 Consensus size: 27
41971 GGTAAGTTTC
41981 AGGTTTATAGTTTGGTTAATTTTCTTT
1 AGGTTTATAGTTTGGTTAATTTTCTTT
42008 AGGTTTATAGTTTGGTTAATTTTCTTT
1 AGGTTTATAGTTTGGTTAATTTTCTTT
*
42035 CGGTTTATAGTTTGGTTAATTTT
1 AGGTTTATAGTTTGGTTAATTTT
42058 TGAATTGGCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.04, G:0.19, T:0.58
Consensus pattern (27 bp):
AGGTTTATAGTTTGGTTAATTTTCTTT
Found at i:44367 original size:156 final size:156
Alignment explanation
Indices: 44045--44570 Score: 674
Period size: 156 Copynumber: 3.4 Consensus size: 156
44035 TTCCTCTTCG
* * * *
44045 ATTTTAAGTCCTTTTTTACCAAATTTGAACCACATGCTCTTAAACCATAGTAGAATACATGTTTA
1 ATTTTAAGTCTTTTTTTACCAAATTTGAGCCACATGCTCCTAAACCATAGTAGAATACATGTGTA
* *
44110 C-TTC----CA-CTTTTTGATAACAAATTTTTATTTTTTTAATTTAGTCCTTTAATTTTTCATAA
66 CTTTCAATTCATCTTTTTGATAACAAATTTTTA-TTTTTCAATTTAGTCCTTCAATTTTTCATAA
*
44169 TCTCCTTATTTCTTCAATTTGTCATTT
130 TCTCCTTATTTATTCAATTTGTCATTT
* * ** *
44196 ATTTTTAGTCTTTTTTTACCATATTTGAGTTACATGCTCCTAAACCATAGTAGAATACACGTGTA
1 ATTTTAAGTCTTTTTTTACCAAATTTGAGCCACATGCTCCTAAACCATAGTAGAATACATGTGTA
44261 CTTTCAATTCATCTTTTTGATAACAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAAT
66 CTTTCAATTCATCTTTTTGATAACAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAAT
*
44326 CTCCTTATTTATTCAATTT-TTATTT
131 CTCCTTATTTATTCAATTTGTCATTT
* * * * *
44351 ATTTTAAGTCTGTTTTTACCAAATTTGAGCCGCATGTTCCTAAACCATAGTAGAATACTTGTGTT
1 ATTTTAAGTCTTTTTTTACCAAATTTGAGCCACATGCTCCTAAACCATAGTAGAATACATGTGTA
* * *
44416 CTTTCAATTCTTCTTTTTGATAACAAATTTTTTATTTTTCAATATAGTCTTTCAATTTTTCATAA
66 CTTTCAATTCATCTTTTTGATAACAAA-TTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAA
*
44481 TCTCCTTATTCCA-TCAATTTGTCATTT
130 TCTCCTTATT-TATTCAATTTGTCATTT
* * * * * * * *
44508 ATTTTAGGT-TCATTTTTACCAAATTTAAACCACATGCTCATATACCACAATAGAATACCATGT
1 ATTTTAAGTCT-TTTTTTACCAAATTTGAGCCACATGCTCCTAAACCATAGTAGAATA-CATGT
44571 AATTTCAATT
Statistics
Matches: 325, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
151 57 0.18
152 3 0.01
155 86 0.26
156 103 0.32
157 72 0.22
158 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (156 bp):
ATTTTAAGTCTTTTTTTACCAAATTTGAGCCACATGCTCCTAAACCATAGTAGAATACATGTGTA
CTTTCAATTCATCTTTTTGATAACAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAAT
CTCCTTATTTATTCAATTTGTCATTT
Found at i:44759 original size:21 final size:20
Alignment explanation
Indices: 44735--44774 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
44725 TCTTTAAAAT
44735 ATAATATTATGAATGTATTTC
1 ATAATATTAT-AATGTATTTC
* *
44756 ATAATTTTATATTGTATTT
1 ATAATATTATAATGTATTT
44775 GATAGGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (20 bp):
ATAATATTATAATGTATTTC
Found at i:49068 original size:22 final size:24
Alignment explanation
Indices: 49041--49091 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
49031 ACCAAAATTT
*
49041 ATATTTTGTTATTGGC-AA-ACTA
1 ATATTTTGTTACTGGCAAACACTA
*
49063 ATATTTTGTTACTGTCAAACACTA
1 ATATTTTGTTACTGGCAAACACTA
49087 ATATT
1 ATATT
49092 GATTATTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.56
23 2 0.08
24 9 0.36
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (24 bp):
ATATTTTGTTACTGGCAAACACTA
Found at i:58061 original size:27 final size:27
Alignment explanation
Indices: 58031--58084 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
58021 AAAACGCAGC
58031 AATAGGTAAC-GATATATAACGGCGTTT
1 AATAGGT-ACTGATATATAACGGCGTTT
* *
58058 AATAGGTACTGATATTTAGCGGCGTTT
1 AATAGGTACTGATATATAACGGCGTTT
58085 GTCTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.33
Consensus pattern (27 bp):
AATAGGTACTGATATATAACGGCGTTT
Found at i:58152 original size:42 final size:43
Alignment explanation
Indices: 58072--58152 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
58062 GGTACTGATA
* *
58072 TTTAGCGGCGTTTGTCTTAAAAATGCCGCAATAGGTGTTAATC
1 TTTAGCGGCGTTTGTCTTAAAAACGCCGCAATAAGTGTTAATC
*
58115 TTTAGCGGCGTTT-T-TTCACAAACGCCGCAATAAGTGTT
1 TTTAGCGGCGTTTGTCTT-AAAAACGCCGCAATAAGTGTT
58153 GATATTTTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 2 0.06
42 19 0.56
43 13 0.38
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTCTTAAAAACGCCGCAATAAGTGTTAATC
Found at i:58314 original size:44 final size:44
Alignment explanation
Indices: 58266--58362 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
58256 TTTTTGCTAT
* * *
58266 ACAAACGCCACGATAGGTATGGTATATAGCGGA-GTTTTTTGGAC
1 ACAAACGCCACGATAGCTATAGTATATAGC-GACGTTTTTAGGAC
* * * *
58310 ACAAACGTCGCGATAGCTCTAGTATATAGCGACGTTTTTAGGAT
1 ACAAACGCCACGATAGCTATAGTATATAGCGACGTTTTTAGGAC
58354 ACAAACGCC
1 ACAAACGCC
58363 GCTAAAATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
ACAAACGCCACGATAGCTATAGTATATAGCGACGTTTTTAGGAC
Found at i:74782 original size:30 final size:30
Alignment explanation
Indices: 74746--74803 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
74736 ATATCTTTAA
*
74746 AAATATATTTTATT-TTTATCTTAACTTATT
1 AAATATATTTTATTATTAAT-TTAACTTATT
74776 AAATATATTTTATTATTAATTTAACTTA
1 AAATATATTTTATTATTAATTTAACTTA
74804 AGATTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (30 bp):
AAATATATTTTATTATTAATTTAACTTATT
Found at i:74804 original size:27 final size:29
Alignment explanation
Indices: 74746--74820 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
74736 ATATCTTTAA
*
74746 AAATATATTTTATT-TTTATCTTAACTTATT
1 AAATATATTTTATTATTAATCTTAAC-T-TT
74776 AAATATATTTTATTATTAAT-TTAAC-TT
1 AAATATATTTTATTATTAATCTTAACTTT
*
74803 AAGAT-TGTTTTATTATTA
1 AA-ATATATTTTATTATTA
74821 TTTTTTAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 16 0.39
28 2 0.05
30 19 0.46
31 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (29 bp):
AAATATATTTTATTATTAATCTTAACTTT
Found at i:74871 original size:28 final size:28
Alignment explanation
Indices: 74840--74902 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
74830 TTAAAAATGT
74840 ATATTTTATTCTTAT-GTTAACATAAAAA
1 ATATTTTATTCTTATCG-TAACATAAAAA
* **
74868 ATATTTTATTTTTATCGTAATTTAAAAA
1 ATATTTTATTCTTATCGTAACATAAAAA
74896 ATATTTT
1 ATATTTT
74903 TAAATCAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (28 bp):
ATATTTTATTCTTATCGTAACATAAAAA
Found at i:75106 original size:27 final size:27
Alignment explanation
Indices: 74954--75134 Score: 107
Period size: 27 Copynumber: 6.4 Consensus size: 27
74944 TAAAAAATTA
*
74954 AAAATAT-TTATAAATTAAAAATAA-AAT
1 AAAATATATT-TAAATT-AAGATAATAAT
* * * *
74981 AACATATTTTTAAATTAAAATAAGAAT
1 AAAATATATTTAAATTAAGATAATAAT
**** *
75008 AAAATATATATTTAAGCGGAGATAACAAT
1 -AAA-ATATATTTAAATTAAGATAATAAT
* *
75037 AAAATACATATTTTAAATTAAAAAAATAAT
1 AAAAT--ATA-TTTAAATTAAGATAATAAT
* *
75067 AAAACA-ATCTTAAATTAAGTTAATAAT
1 AAAATATAT-TTAAATTAAGATAATAAT
*
75094 AAAATATATTTAATAAGTTAAGATAAAAAT
1 AAAATATATTT-A-AA-TTAAGATAATAAT
75124 AAAATATATTT
1 AAAATATATTT
75135 CTAAAGATAT
Statistics
Matches: 119, Mismatches: 23, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
26 8 0.07
27 40 0.34
28 11 0.09
29 22 0.18
30 38 0.32
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAATATATTTAAATTAAGATAATAAT
Found at i:76128 original size:24 final size:24
Alignment explanation
Indices: 76093--76149 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
76083 AACCACAGTA
*
76093 GTTTGAGCGATCATCAAGACGACC
1 GTTTGAGTGATCATCAAGACGACC
*
76117 GTTTGAGTGATCATCAAGATGACC
1 GTTTGAGTGATCATCAAGACGACC
76141 GTTTGAGTG
1 GTTTGAGTG
76150 GTGTAGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (24 bp):
GTTTGAGTGATCATCAAGACGACC
Found at i:77088 original size:21 final size:22
Alignment explanation
Indices: 77055--77131 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
77045 ATAATTTGCA
77055 CCGAAGTG-CCACATA-TTTATC
1 CCGAAG-GACCACATAGTTTATC
* *
77076 CCGAAGGATCACATAGGTTTGTC
1 CCGAAGGACCACATA-GTTTATC
* *
77099 CCGAATGACCACATAGGATTATC
1 CCGAAGGACCACATA-GTTTATC
77122 CC-AAGGACCA
1 CCGAAGGACCA
77132 GGATTGTCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.02
21 12 0.26
22 7 0.15
23 26 0.57
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (22 bp):
CCGAAGGACCACATAGTTTATC
Found at i:77102 original size:23 final size:23
Alignment explanation
Indices: 77071--77131 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
77061 TGCCACATAT
* *
77071 TTATCCCGAAGGATCACATAGGT
1 TTATCCCGAAGGACCACATAGGA
* *
77094 TTGTCCCGAATGACCACATAGGA
1 TTATCCCGAAGGACCACATAGGA
77117 TTATCCC-AAGGACCA
1 TTATCCCGAAGGACCA
77132 GGATTGTCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (23 bp):
TTATCCCGAAGGACCACATAGGA
Found at i:77136 original size:18 final size:18
Alignment explanation
Indices: 77113--77150 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
77103 ATGACCACAT
77113 AGGATTATCCCAAGGACC
1 AGGATTATCCCAAGGACC
*
77131 AGGATTGTCCCAAGGACC
1 AGGATTATCCCAAGGACC
77149 AG
1 AG
77151 AATTGTCCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.16
Consensus pattern (18 bp):
AGGATTATCCCAAGGACC
Found at i:77155 original size:18 final size:18
Alignment explanation
Indices: 77120--77159 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
77110 CATAGGATTA
*
77120 TCCCAAGGACCAGGATTG
1 TCCCAAGGACCAGAATTG
77138 TCCCAAGGACCAGAATTG
1 TCCCAAGGACCAGAATTG
77156 TCCC
1 TCCC
77160 GAAAGACCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.17
Consensus pattern (18 bp):
TCCCAAGGACCAGAATTG
Found at i:79219 original size:28 final size:30
Alignment explanation
Indices: 79188--79258 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 30
79178 TGAAATTATT
*
79188 GAAATTCCCAAAAAAAC-CTTAAATTCC-A
1 GAAAATCCCAAAAAAACTCTTAAATTCCTA
*
79216 GAAAATCTC-AAAAAACTCTTAAATTCCTA
1 GAAAATCCCAAAAAAACTCTTAAATTCCTA
79245 -AAAATCCCAAAAAA
1 GAAAATCCCAAAAAA
79259 TTTAGGGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.19
28 24 0.65
29 6 0.16
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.21
Consensus pattern (30 bp):
GAAAATCCCAAAAAAACTCTTAAATTCCTA
Found at i:80111 original size:30 final size:30
Alignment explanation
Indices: 80047--80120 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
80037 GTTTATGATT
* *
80047 TTTTGAGATTTTTAGGAATTTAGGAGTTTT
1 TTTTGAGATTTTTAGGAATTTAAGAGTTTG
80077 TTTTGAGATTTTCT-GGAATTTAAG-GTTATG
1 TTTTGAGATTTT-TAGGAATTTAAGAGTT-TG
* *
80107 TTTTGGGAATTTTA
1 TTTTGAGATTTTTA
80121 ATAATGTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 4 0.11
30 32 0.86
31 1 0.03
ACGTcount: A:0.23, C:0.01, G:0.23, T:0.53
Consensus pattern (30 bp):
TTTTGAGATTTTTAGGAATTTAAGAGTTTG
Found at i:88740 original size:22 final size:22
Alignment explanation
Indices: 88715--88763 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
88705 CACCACAGCT
88715 CACATAATTTG-CACCGAAGTG-C
1 CACATAATTTGTC-CCGAAG-GAC
88737 CACAT-ATTTGTCCCGAAGGAC
1 CACATAATTTGTCCCGAAGGAC
88758 CACATA
1 CACATA
88764 GAACCCTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 1 0.04
21 17 0.71
22 6 0.25
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (22 bp):
CACATAATTTGTCCCGAAGGAC
Found at i:95245 original size:20 final size:21
Alignment explanation
Indices: 95222--95273 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
95212 TTACTCTTGG
95222 TATCGATACTCCCCTT-TCAA
1 TATCGATACTCCCCTTATCAA
* *
95242 TATCGGTAC-CTCCTTCAATCAA
1 TATCGATACTCCCCTT--ATCAA
95264 TATCGATACT
1 TATCGATACT
95274 GTTCCTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.20
20 8 0.32
22 12 0.48
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (21 bp):
TATCGATACTCCCCTTATCAA
Found at i:99262 original size:65 final size:65
Alignment explanation
Indices: 99115--99270 Score: 185
Period size: 65 Copynumber: 2.4 Consensus size: 65
99105 ACACCCTAAT
* * * * *
99115 TCAAATGCAT-TTTGTGTACCGATGCACAGCCATGCATCGATGCACTCTTAATTTTATTGAAACA
1 TCAAATGCATATTAGTGTACCGATGCACAGCCATGCATCGATACACTCCTAATCTTATTGAAAAA
* *
99179 TCAAATGCATTTTA-TGTACCGATGCACAGACCATGCATCGATACACTCCTAGCTCTT-TTGAAA
1 TCAAATGCATATTAGTGTACCGATGCACAG-CCATGCATCGATACACTCCTA-ATCTTATTGAAA
99242 AA
64 AA
* *
99244 TCGAATGTA-ATTAGTGTACCGATGCAC
1 TCAAATGCATATTAGTGTACCGATGCAC
99271 CCCAAGTGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
64 28 0.35
65 48 0.61
66 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (65 bp):
TCAAATGCATATTAGTGTACCGATGCACAGCCATGCATCGATACACTCCTAATCTTATTGAAAAA
Found at i:104694 original size:64 final size:65
Alignment explanation
Indices: 104609--104762 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 65
104599 AACCTAATTA
* * * * * *
104609 GAATGCATTTTGTGTATCGATGCACA-TCCATGCATCGATGCACT-CTTGATTTTATTAAAACAT
1 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATACACTCCTGGATCTT-TTAAAACAT
104672 C
65 C
* *
104673 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATACACTCCTGGCTCTTTTGAAACATC
1 GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATACACTCCTGGATCTTTTAAAACATC
* *
104738 GAATGTA-ATTAGTGTACCGATGCAC
1 GAATGCATTTTA-TGTACCGATGCAC
104763 CCCAACTGTA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 27 0.35
65 44 0.57
66 6 0.08
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (65 bp):
GAATGCATTTTATGTACCGATGCACAGACCATGCATCGATACACTCCTGGATCTTTTAAAACATC
Found at i:106187 original size:60 final size:59
Alignment explanation
Indices: 106093--106389 Score: 434
Period size: 60 Copynumber: 5.0 Consensus size: 59
106083 GCCTATTCTG
*
106093 ATCTTCCATATTGGACTCATAGATCCTAGTGGTCTAGGGTAAGTCCTTATGGATGCATGT
1 ATCTTCCATATTGGACTCCTAGATCCTAGTGGTCTAGGGTAAGTCCTTATGGATGC-TGT
* * * *
106153 TTCTTCCTTATTGGATTCCTAGATCCTA-TAGGTCTAGGGTAAGCCCTTATGGATGTCTGT
1 ATCTTCCATATTGGACTCCTAGATCCTAGT-GGTCTAGGGTAAGTCCTTATGGATG-CTGT
* * **
106213 ATATTCCATATTGGACTCCTAGATCTTAGTGGTCTAGGGTAAGTCCTTATGGATGCCCAT
1 ATCTTCCATATTGGACTCCTAGATCCTAGTGGTCTAGGGTAAGTCCTTATGGATG-CTGT
* *
106273 ATCTTCCATATTGGACTCCTAGATCCTAGTGGTCTAAGGTAAGTCTTTATGGATGTCTGT
1 ATCTTCCATATTGGACTCCTAGATCCTAGTGGTCTAGGGTAAGTCCTTATGGATG-CTGT
*
106333 ATCTTCCATATTGGACTCCTAGATCCTAGTGGTCTAGGGTAAGTCCTTATAGATGCT
1 ATCTTCCATATTGGACTCCTAGATCCTAGTGGTCTAGGGTAAGTCCTTATGGATGCT
106390 TGTTCTGGGT
Statistics
Matches: 210, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
59 3 0.01
60 205 0.98
61 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (59 bp):
ATCTTCCATATTGGACTCCTAGATCCTAGTGGTCTAGGGTAAGTCCTTATGGATGCTGT
Found at i:110701 original size:60 final size:60
Alignment explanation
Indices: 110603--110721 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
110593 TCTGTTATGA
* * *
110603 TCTTTCATATTAGACTCTTAGATCCTAGTGGTATAGGGTAAGTCCTTATGGATGCATGTG
1 TCTTCCATATTAGACTCCTAGATCCTAATGGTATAGGGTAAGTCCTTATGGATGCATGTG
* * *
110663 TCTTCCATATTGGACTCCTAGATCCTAATGGTCTAGGGTAAGTCCTTATGGATGTATGT
1 TCTTCCATATTAGACTCCTAGATCCTAATGGTATAGGGTAAGTCCTTATGGATGCATGT
110722 TCTGAAGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (60 bp):
TCTTCCATATTAGACTCCTAGATCCTAATGGTATAGGGTAAGTCCTTATGGATGCATGTG
Found at i:114714 original size:28 final size:28
Alignment explanation
Indices: 114671--114724 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
114661 ATATAAAATA
* *
114671 TGATTTCTGATATCTAGTTTCTGATTAC
1 TGATTTCTAATATCTAGTTCCTGATTAC
*
114699 TGATTTCTAATCTCTAGTTCCTGATT
1 TGATTTCTAATATCTAGTTCCTGATT
114725 TTTTATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (28 bp):
TGATTTCTAATATCTAGTTCCTGATTAC
Found at i:114984 original size:119 final size:119
Alignment explanation
Indices: 114828--115060 Score: 362
Period size: 119 Copynumber: 2.0 Consensus size: 119
114818 GTTTGTTCTG
*
114828 ATCTTCCATATTGAACTCCTAGATCATAGTGGCCTAGGGTAAGTCCTTATGGATGCATGTATCTT
1 ATCTTCCATATTGAACTCCTAGATCATAGTGGCCTAGGGTAAGTCCTTATAGATGCATGTATCTT
*
114893 CCATATTGGACTCCTAGATCATAGAGGT-TAGGGTAAGTCCTTATGGATGCTTGT
66 CCATATTGGACTCCTAGATCATAGAGGTCTA-GGAAAGTCCTTATGGATGCTTGT
* * * *
114947 ATCTTTCATATT-AGACTCTTAGATCCTAGTGGTCTAGGGTAAGTCCTTATAGATGCATGTATCT
1 ATCTTCCATATTGA-ACTCCTAGATCATAGTGGCCTAGGGTAAGTCCTTATAGATGCATGTATCT
* *
115011 TCCATATTGGACTCCTAGATCCTAGTGGTCTAGGAAAGTCCTTATGGATG
65 TCCATATTGGACTCCTAGATCATAGAGGTCTAGGAAAGTCCTTATGGATG
115061 ACTATTTTGG
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
118 1 0.01
119 101 0.97
120 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (119 bp):
ATCTTCCATATTGAACTCCTAGATCATAGTGGCCTAGGGTAAGTCCTTATAGATGCATGTATCTT
CCATATTGGACTCCTAGATCATAGAGGTCTAGGAAAGTCCTTATGGATGCTTGT
Found at i:115008 original size:60 final size:60
Alignment explanation
Indices: 114828--115060 Score: 353
Period size: 60 Copynumber: 3.9 Consensus size: 60
114818 GTTTGTTCTG
* *
114828 ATCTTCCATATTGAACTCCTAGATCATAGTGGCCTAGGGTAAGTCCTTATGGATGCATGT
1 ATCTTCCATATTGGACTCCTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATGCATGT
* *
114888 ATCTTCCATATTGGACTCCTAGATCATAGAGGT-TAGGGTAAGTCCTTATGGATGCTTGT
1 ATCTTCCATATTGGACTCCTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATGCATGT
* * * * *
114947 ATCTTTCATATTAGACTCTTAGATCCTAGTGGTCTAGGGTAAGTCCTTATAGATGCATGT
1 ATCTTCCATATTGGACTCCTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATGCATGT
* *
115007 ATCTTCCATATTGGACTCCTAGATCCTAGTGGTCTA-GGAAAGTCCTTATGGATG
1 ATCTTCCATATTGGACTCCTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATG
115061 ACTATTTTGG
Statistics
Matches: 156, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
59 69 0.44
60 87 0.56
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (60 bp):
ATCTTCCATATTGGACTCCTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATGCATGT
Found at i:117718 original size:20 final size:19
Alignment explanation
Indices: 117684--117727 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
117674 TATTCAAAAA
117684 TATTAAAATAAAAATTAAAT
1 TATTAAAATAAAAA-TAAAT
*
117704 TATTAAAACT-AAAATATAT
1 TATTAAAA-TAAAAATAAAT
117723 TATTA
1 TATTA
117728 TATTTTACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 12 0.55
21 1 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAAATAAAAATAAAT
Found at i:118331 original size:21 final size:23
Alignment explanation
Indices: 118305--118348 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
118295 TAATTTAATT
118305 TTTATTTTTACTAT-TTT-TATA
1 TTTATTTTTACTATATTTGTATA
*
118326 TTTATTTTTTCTATATTTGTATA
1 TTTATTTTTACTATATTTGTATA
118349 GACTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 3 0.15
23 4 0.20
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTATTTTTACTATATTTGTATA
Found at i:119721 original size:16 final size:17
Alignment explanation
Indices: 119702--119733 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
119692 AATATTGTTA
119702 ATTAT-ATTTAATCATT
1 ATTATAATTTAATCATT
119718 ATTATAATTTAATCAT
1 ATTATAATTTAATCAT
119734 AAGTAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATAATTTAATCATT
Found at i:119808 original size:30 final size:32
Alignment explanation
Indices: 119774--119846 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
119764 ATAAAATTCT
119774 TATTTTA-A-TTGATAAAAAATATGGTTAATA
1 TATTTTACATTTGATAAAAAATATGGTTAATA
* *
119804 TA-TTTACATTTTTATAAAAAATATTGTTAATA
1 TATTTTACA-TTTGATAAAAAATATGGTTAATA
119836 TA-TTTACATTT
1 TATTTTACATTT
119847 TTGCAAGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 4 0.11
30 3 0.08
31 3 0.08
32 28 0.74
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (32 bp):
TATTTTACATTTGATAAAAAATATGGTTAATA
Found at i:119826 original size:32 final size:32
Alignment explanation
Indices: 119785--119848 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
119775 ATTTTAATTG
119785 ATAAAAAATATGGTTAATATATTTACATTTTT
1 ATAAAAAATATGGTTAATATATTTACATTTTT
*
119817 ATAAAAAATATTGTTAATATATTTACATTTTT
1 ATAAAAAATATGGTTAATATATTTACATTTTT
119849 GCAAGGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (32 bp):
ATAAAAAATATGGTTAATATATTTACATTTTT
Found at i:120023 original size:47 final size:47
Alignment explanation
Indices: 119954--120048 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
119944 AATCATTAGT
*
119954 ATAATTTGATCAACATTTGATTTAGTATTTCTAGTAAAAATGTTAAA
1 ATAATTAGATCAACATTTGATTTAGTATTTCTAGTAAAAATGTTAAA
120001 ATAATTAGATCAACATTTGATTTAGTATTTCTAGTAAAAATGTTAAA
1 ATAATTAGATCAACATTTGATTTAGTATTTCTAGTAAAAATGTTAAA
120048 A
1 A
120049 ATATTTTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (47 bp):
ATAATTAGATCAACATTTGATTTAGTATTTCTAGTAAAAATGTTAAA
Found at i:120092 original size:33 final size:31
Alignment explanation
Indices: 120045--120105 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
120035 TAAAAATGTT
120045 AAAAATATTTTAATATATTTACATTTTTATA
1 AAAAATATTTTAATATATTTACATTTTTATA
*
120076 AAAAATTATTGTTAATATATTTACTTTTTT
1 AAAAA-TATT-TTAATATATTTACATTTTT
120106 TGTAACTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 5 0.19
32 4 0.15
33 18 0.67
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (31 bp):
AAAAATATTTTAATATATTTACATTTTTATA
Found at i:122661 original size:27 final size:27
Alignment explanation
Indices: 122610--122661 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
122600 TGTTGATGTT
*
122610 ATATTTGAATGAATGTCATTAATATCA
1 ATATTTGAATGAATGTCATGAATATCA
* *
122637 ATATTTGAATGAATGTGATGGATAT
1 ATATTTGAATGAATGTCATGAATAT
122662 TTGTTGATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (27 bp):
ATATTTGAATGAATGTCATGAATATCA
Found at i:122715 original size:23 final size:23
Alignment explanation
Indices: 122685--122728 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
122675 ATTTGAATGA
122685 ATGTGAATAACATCAACATTTCT
1 ATGTGAATAACATCAACATTTCT
* *
122708 ATGTGAATAATATCAATATTT
1 ATGTGAATAACATCAACATTT
122729 TATTTAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
ATGTGAATAACATCAACATTTCT
Found at i:128589 original size:4 final size:4
Alignment explanation
Indices: 128580--128613 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
128570 AGATTTTAGA
128580 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
128614 AGGTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:130172 original size:13 final size:13
Alignment explanation
Indices: 130154--130180 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
130144 GGCTCTGTAG
130154 CCCCGAGATATTT
1 CCCCGAGATATTT
130167 CCCCGAGATATTT
1 CCCCGAGATATTT
130180 C
1 C
130181 TTGGGTAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (13 bp):
CCCCGAGATATTT
Found at i:130211 original size:30 final size:30
Alignment explanation
Indices: 130171--130248 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 30
130161 ATATTTCCCC
* *
130171 GAGATATTTCTTGGGTAGGCCCTATGGCCCT
1 GAGAT-TTTCTTGGGTAGGCCCCATGGCCAT
*
130202 GAGATTTTCTTGGGTAGGCCCCGTGGCCAT
1 GAGATTTTCTTGGGTAGGCCCCATGGCCAT
*
130232 GAGAACTTTCTTGGGTA
1 GAG-ATTTTCTTGGGTA
130249 CGATCTCAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 25 0.60
31 17 0.40
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (30 bp):
GAGATTTTCTTGGGTAGGCCCCATGGCCAT
Found at i:134133 original size:20 final size:20
Alignment explanation
Indices: 134110--134156 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
134100 CATGCAAAAT
* *
134110 CGAACCAAATTGACCCGACC
1 CGAACCAAATTGACACAACC
* *
134130 CGAACCGATTTGACACAACC
1 CGAACCAAATTGACACAACC
134150 CGAACCA
1 CGAACCA
134157 TTGACTGTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.38, G:0.15, T:0.11
Consensus pattern (20 bp):
CGAACCAAATTGACACAACC
Found at i:134198 original size:22 final size:22
Alignment explanation
Indices: 134172--134249 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
134162 TGTATGACCA
*
134172 TTGACCTTGACCGGTCAGAACG
1 TTGACTTTGACCGGTCAGAACG
* * *
134194 TTGACTTTAACCAGTCAGACCG
1 TTGACTTTGACCGGTCAGAACG
* *
134216 TTGACTTTGACCGGTCTGATCG
1 TTGACTTTGACCGGTCAGAACG
134238 TTGACTTTGACC
1 TTGACTTTGACC
134250 AAAAGTCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
TTGACTTTGACCGGTCAGAACG
Found at i:134240 original size:44 final size:44
Alignment explanation
Indices: 134167--134250 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
134157 TTGACTGTAT
134167 GACCATTGACCTTGACCGGTCAGAACGTTGACTTTAACCAGTCA
1 GACCATTGACCTTGACCGGTCAGAACGTTGACTTTAACCAGTCA
* * * * *
134211 GACCGTTGACTTTGACCGGTCTGATCGTTGACTTTGACCA
1 GACCATTGACCTTGACCGGTCAGAACGTTGACTTTAACCA
134251 AAAGTCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (44 bp):
GACCATTGACCTTGACCGGTCAGAACGTTGACTTTAACCAGTCA
Found at i:139722 original size:20 final size:22
Alignment explanation
Indices: 139697--139744 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
139687 TTGGGATCAG
*
139697 AAAAATGTA-AATAAAT-AAAT
1 AAAAATGTATAAGAAATAAAAT
*
139717 AAAAAT-TATTAGAAATAAAAT
1 AAAAATGTATAAGAAATAAAAT
139738 AAAAATG
1 AAAAATG
139745 AATATATTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 11 0.48
21 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (22 bp):
AAAAATGTATAAGAAATAAAAT
Found at i:139818 original size:9 final size:9
Alignment explanation
Indices: 139804--139835 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
139794 GTGTGATGAT
139804 GATGACGAC
1 GATGACGAC
139813 GATGACGAC
1 GATGACGAC
*
139822 GACGACGAC
1 GATGACGAC
139831 GATGA
1 GATGA
139836 TGTGGTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.34, T:0.09
Consensus pattern (9 bp):
GATGACGAC
Found at i:141775 original size:21 final size:19
Alignment explanation
Indices: 141751--141789 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
141741 AATATCAATA
141751 ACAACAAACTTTAAATCCATG
1 ACAACAAA--TTAAATCCATG
*
141772 ACAACCAATTAAATCCAT
1 ACAACAAATTAAATCCAT
141790 TATAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
21 7 0.41
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.23
Consensus pattern (19 bp):
ACAACAAATTAAATCCATG
Found at i:149599 original size:17 final size:17
Alignment explanation
Indices: 149579--149612 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
149569 ATTTTTGGTC
149579 CCCAAATTCTTTTAGGT
1 CCCAAATTCTTTTAGGT
149596 CCCAAATTCTTTTAGGT
1 CCCAAATTCTTTTAGGT
149613 ACATATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (17 bp):
CCCAAATTCTTTTAGGT
Found at i:155637 original size:26 final size:26
Alignment explanation
Indices: 155595--155684 Score: 135
Period size: 26 Copynumber: 3.5 Consensus size: 26
155585 ATGCCTTCAT
*
155595 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATACATTTTATTTATG
* *
155621 GCATCCTTTTATACATTTCATTTATG
1 GCATCCTTTCATACATTTTATTTATG
*
155647 GCATCCTTTCACACATTTTATTTATG
1 GCATCCTTTCATACATTTTATTTATG
*
155673 GTATCCTTTCAT
1 GCATCCTTTCAT
155685 GCCTTAATTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (26 bp):
GCATCCTTTCATACATTTTATTTATG
Found at i:155700 original size:20 final size:21
Alignment explanation
Indices: 155675--155713 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
155665 TATTTATGGT
155675 ATCCTTTCATGCCT-TAATTC
1 ATCCTTTCATGCCTATAATTC
155695 ATCCTTTCATGCCTATAAT
1 ATCCTTTCATGCCTATAAT
155714 GCAACCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.28, G:0.05, T:0.44
Consensus pattern (21 bp):
ATCCTTTCATGCCTATAATTC
Found at i:155747 original size:34 final size:34
Alignment explanation
Indices: 155703--155851 Score: 111
Period size: 34 Copynumber: 4.1 Consensus size: 34
155693 TCATCCTTTC
*
155703 ATGCCTATAATGCAACCATATGCATTATTATTTT
1 ATGCCGATAATGCAACCATATGCATTATTATTTT
*
155737 ATGCCGATAATGCACCCATATGCATTTCAACTATGGCATCATTT
1 ATGCCGATAATGCAACCATATGCA-TT--A-T-T---AT--TTT
* *
155781 CATGCCAATAATGC-ACGCATATGCATTATTCTTTT
1 -ATGCCGATAATGCAAC-CATATGCATTATTATTTT
* * * *
155816 ATGTCGATAATGCACCCATATGCACTATTCTTTT
1 ATGCCGATAATGCAACCATATGCATTATTATTTT
155850 AT
1 AT
155852 TCATTCGTTC
Statistics
Matches: 93, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
34 52 0.56
35 6 0.06
37 2 0.02
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 3 0.03
44 6 0.06
45 20 0.22
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (34 bp):
ATGCCGATAATGCAACCATATGCATTATTATTTT
Found at i:155830 original size:79 final size:79
Alignment explanation
Indices: 155694--155839 Score: 240
Period size: 79 Copynumber: 1.8 Consensus size: 79
155684 TGCCTTAATT
* *
155694 CATCCTTTCATGCCTATAATGCAACCATATGCATTATTATTTTATGCCGATAATGCACCCATATG
1 CATCATTTCATGCCAATAATGCAACCATATGCATTATTATTTTATGCCGATAATGCACCCATATG
155759 CATTTCAACTATGG
66 CATTTCAACTATGG
* *
155773 CATCATTTCATGCCAATAATGC-ACGCATATGCATTATTCTTTTATGTCGATAATGCACCCATAT
1 CATCATTTCATGCCAATAATGCAAC-CATATGCATTATTATTTTATGCCGATAATGCACCCATAT
155837 GCA
65 GCA
155840 CTATTCTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 2 0.03
79 60 0.97
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
CATCATTTCATGCCAATAATGCAACCATATGCATTATTATTTTATGCCGATAATGCACCCATATG
CATTTCAACTATGG
Found at i:156326 original size:19 final size:20
Alignment explanation
Indices: 156257--156327 Score: 83
Period size: 22 Copynumber: 3.5 Consensus size: 20
156247 TGACTCCATA
* *
156257 GTATCGATACCCATACCATG
1 GTATCGATACTCATACTATG
156277 GTATCGATACTACTATACTATG
1 GTATCGATACT-C-ATACTATG
156299 GTA-CTGATACTC-TACTATG
1 GTATC-GATACTCATACTATG
156318 GTATCGATAC
1 GTATCGATAC
156328 CATTTTTGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
19 15 0.33
20 11 0.24
21 3 0.07
22 16 0.36
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACTCATACTATG
Found at i:156396 original size:20 final size:19
Alignment explanation
Indices: 156352--156389 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
156342 GCTTTGAAAT
*
156352 GGTATCGATACCTTCCCTTA
1 GGTATCGATA-CTACCCTTA
156372 GGTATCGATACTACCCTT
1 GGTATCGATACTACCCTT
156390 TCGGTATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (19 bp):
GGTATCGATACTACCCTTA
Found at i:157501 original size:13 final size:13
Alignment explanation
Indices: 157483--157510 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
157473 CATTTCTTTT
157483 TCTTTCTTTGACA
1 TCTTTCTTTGACA
157496 TCTTTCTTTGACA
1 TCTTTCTTTGACA
157509 TC
1 TC
157511 GCAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.25, G:0.07, T:0.54
Consensus pattern (13 bp):
TCTTTCTTTGACA
Found at i:158091 original size:16 final size:16
Alignment explanation
Indices: 158044--158092 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
158034 AACTTCTTTC
*
158044 CATTAAACAACCACTC
1 CATTAAACAACCACTT
158060 CATTAAACAACCACTT
1 CATTAAACAACCACTT
158076 CATTAAACAACCACTT
1 CATTAAACAACCACTT
158092 C
1 C
158093 CAACATGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (16 bp):
CATTAAACAACCACTT
Found at i:159851 original size:44 final size:45
Alignment explanation
Indices: 159759--159868 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 45
159749 AATTATATAT
* * **
159759 CCATCTAAGTCAATCCAAATATTAACTAAACAACGAGTGATATTC
1 CCATCTAAGTCAATCCAAATATTAACTAAACAACAAGTGAAAACC
** **
159804 CCATCTAAGTCGGTCCAAATA-TAACTAAATGACAAGTGAAAACC
1 CCATCTAAGTCAATCCAAATATTAACTAAACAACAAGTGAAAACC
159848 CCATCTAAGGT-AATCCAAATA
1 CCATCTAA-GTCAATCCAAATA
159869 GACAAGTGAT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 33 0.61
45 21 0.39
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.24
Consensus pattern (45 bp):
CCATCTAAGTCAATCCAAATATTAACTAAACAACAAGTGAAAACC
Found at i:166512 original size:41 final size:41
Alignment explanation
Indices: 166442--166573 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 41
166432 TAAATTATAG
* *
166442 CACTACAA-TACAACTCTCTAATGGTGTTTGTGTACAAATGC
1 CACTA-AAGTACAACTCTATAATGGCGTTTGTGTACAAATGC
* * * * *
166483 CACTAAAGTACAAGTCTATAGTGGCGTTTGTATAAAAACGC
1 CACTAAAGTACAACTCTATAATGGCGTTTGTGTACAAATGC
* *
166524 CACTACAA-TACAACTCTCTAATGGTGTTTGTGTACAAATGC
1 CACTA-AAGTACAACTCTATAATGGCGTTTGTGTACAAATGC
*
166565 CACGAAAGT
1 CACTAAAGT
166574 CTGAGTTTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
40 4 0.05
41 67 0.92
42 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (41 bp):
CACTAAAGTACAACTCTATAATGGCGTTTGTGTACAAATGC
Found at i:166604 original size:82 final size:82
Alignment explanation
Indices: 166442--166604 Score: 238
Period size: 82 Copynumber: 2.0 Consensus size: 82
166432 TAAATTATAG
* *
166442 CACTACAATACAACTCTCTAATGGTGTTTGTGTACAAATGCCACTAAAGTACAAGTCTATAGTGG
1 CACTACAATACAACTCTCTAATGGTGTTTGTGTACAAATGCCACGAAAGTACAAGTCTATAGCGG
*
166507 CGTTTGTATAAAAACGC
66 CGTTTGTACAAAAACGC
* * *
166524 CACTACAATACAACTCTCTAATGGTGTTTGTGTACAAATGCCACGAAAGT-CTGAGTTTTTAGCG
1 CACTACAATACAACTCTCTAATGGTGTTTGTGTACAAATGCCACGAAAGTAC-AAGTCTATAGCG
* *
166588 GCGTTTTTACACAAACG
65 GCGTTTGTACAAAAACG
166605 TTACTAAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 1 0.01
82 71 0.99
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (82 bp):
CACTACAATACAACTCTCTAATGGTGTTTGTGTACAAATGCCACGAAAGTACAAGTCTATAGCGG
CGTTTGTACAAAAACGC
Found at i:166694 original size:20 final size:20
Alignment explanation
Indices: 166669--166712 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
166659 CCTAAAGTAA
166669 ACCCTTGATTAGGAAATAAT
1 ACCCTTGATTAGGAAATAAT
166689 ACCCTTGATTAGGAAATAAT
1 ACCCTTGATTAGGAAATAAT
166709 ACCC
1 ACCC
166713 AAAGTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
ACCCTTGATTAGGAAATAAT
Found at i:167026 original size:42 final size:42
Alignment explanation
Indices: 166989--167113 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
166979 ACCACTTATA
*
166989 TACATGACTATTGCAGCGTTTATTAAAAAAATGCCACTAAAT
1 TACATGACTATTGCAGCGTTTATTAAAAAAATGCCACTAAAG
* * *
167031 TACATGATTATTGC-GTCGTTTATTATACAAATGCCACTAAAG
1 TACATGACTATTGCAG-CGTTTATTAAAAAAATGCCACTAAAG
* * *
167073 TACAGGACTATTGTAGCG-TT-TTAAAAAAA-ACCACTAAAG
1 TACATGACTATTGCAGCGTTTATTAAAAAAATGCCACTAAAG
167112 TA
1 TA
167114 GAATTCTATA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 11 0.15
40 7 0.10
41 3 0.04
42 49 0.69
43 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (42 bp):
TACATGACTATTGCAGCGTTTATTAAAAAAATGCCACTAAAG
Found at i:167152 original size:42 final size:41
Alignment explanation
Indices: 167104--167189 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 41
167094 TAAAAAAAAC
* *
167104 CACTAAAGTA-GAATTCTATAGCGGCATTTTTAAACCAAATGA
1 CACTAAAGTACG-AGTCTATAGCGGCATTTGTAAA-CAAATGA
*
167146 CACTAAAGTACGAGTCTATAGCGGCGTTTGTAAACAAATGA
1 CACTAAAGTACGAGTCTATAGCGGCATTTGTAAACAAATGA
167187 CAC
1 CAC
167190 GAAGTCTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 10 0.25
42 29 0.73
43 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (41 bp):
CACTAAAGTACGAGTCTATAGCGGCATTTGTAAACAAATGA
Found at i:178498 original size:16 final size:15
Alignment explanation
Indices: 178463--178500 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
178453 TATTTAATTT
*
178463 AAAAAAT-TTATATA
1 AAAAAATATTAAATA
178477 AAAAAATATTAAATA
1 AAAAAATATTAAATA
178492 AATAAAATA
1 AA-AAAATA
178501 AATGTAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAAATATTAAATA
Found at i:178531 original size:22 final size:21
Alignment explanation
Indices: 178506--178549 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
178496 AAATAAATGT
* *
178506 AGAAAATATTAAATTTCAAAAA
1 AGAAAATAATAAATAT-AAAAA
178528 AGAAAATAATAAATATAAAAA
1 AGAAAATAATAAATATAAAAA
178549 A
1 A
178550 TATTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (21 bp):
AGAAAATAATAAATATAAAAA
Found at i:178551 original size:16 final size:15
Alignment explanation
Indices: 178530--178591 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
178520 TTCAAAAAAG
178530 AAAATAATAAATATAA
1 AAAATAATAAA-ATAA
*
178546 AAAATATTAAAATAA
1 AAAATAATAAAATAA
* *
178561 AAATAAAATAAAACAA
1 AAA-ATAATAAAATAA
*
178577 ATAGATAA-AAAATAA
1 A-AAATAATAAAATAA
178592 GTGGGAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 13 0.35
16 23 0.62
17 1 0.03
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAAATAA
Found at i:178563 original size:35 final size:37
Alignment explanation
Indices: 178497--178571 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 37
178487 AAATAAATAA
* * *
178497 AATAAATGTAGAAAATATTAAATTTCAAAAAAGAAAAT
1 AATAAATATAAAAAATATTAAATAT-AAAAAAGAAAAT
*
178535 AATAAATATAAAAAATATTAAA-AT-AAAAATAAAAT
1 AATAAATATAAAAAATATTAAATATAAAAAAGAAAAT
178570 AA
1 AA
178572 AACAAATAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 12 0.36
37 1 0.03
38 20 0.61
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (37 bp):
AATAAATATAAAAAATATTAAATATAAAAAAGAAAAT
Found at i:178615 original size:14 final size:13
Alignment explanation
Indices: 178559--178625 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
178549 ATATTAAAAT
*
178559 AAAAATAAAATAA
1 AAAAATAAGATAA
178572 AACAAAT-AGAT-A
1 AA-AAATAAGATAA
**
178584 AAAAATAAG-TGG
1 AAAAATAAGATAA
*
178596 GAAAATAAGATAA
1 AAAAATAAGATAA
*
178609 AACAAATAAAATAA
1 AA-AAATAAGATAA
178623 AAA
1 AAA
178626 GGAAAATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 5 0.12
12 13 0.31
13 8 0.19
14 16 0.38
ACGTcount: A:0.73, C:0.03, G:0.09, T:0.15
Consensus pattern (13 bp):
AAAAATAAGATAA
Found at i:178713 original size:18 final size:17
Alignment explanation
Indices: 178692--178732 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
178682 GTTGTTTTTA
*
178692 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAA-T
*
178710 AAATAAAAGAAAATAAT
1 AAATAAAAGAAAAGAAT
178727 AAATAA
1 AAATAA
178733 TTAAAGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
AAATAAAAGAAAAGAAT
Found at i:179982 original size:270 final size:268
Alignment explanation
Indices: 179545--180154 Score: 856
Period size: 270 Copynumber: 2.3 Consensus size: 268
179535 AGTCGATCCA
* * *
179545 TTGGGCACGATATCCTTCTTCGTGAAG-CTAAAATCGT-GAGT-AGCTCCTTCATTGTGAAGTTG
1 TTGGGTACGATATCCTTCTT-GTGAAGTC-GAAATCGTAG-GTGA-CTCCTTCGTTGTGAAGTTG
* * * * *
179607 AGCTTTGAACTGAAAAATCCTGAGCAAGATATCCTTCCTCGTGAAGCTGAAACTGGGCTCAAAGC
62 AGCTTTGAACTAAAAAATCCTGAGCAAGATATCCTTCATCATGAAGCTGAAACCGAGCTCAAAGC
* *
179672 ATTGGAAAGTCGCTCATGTATCGTCTTCTAGGCCAATATACTTCGTCGTGAAGCTGAAATTTGAC
127 ATTGGAAAGTCACTCATGTATCGTCTTCTAGGCCAATATACTTCATCGTGAAGCTGAAATTTGAC
* **
179737 CTGAAGAAT-TTGGTATGAAACTAG-TTTTTCATTGTTGTGTTACAGATGACTCCTTCGTTGTGA
192 CTGAAGAATCTT-GTATGAAACTAGCATTTT-ATTGTTGTGTTACAGATGACTCCTTCGTCATGA
179800 AGTTAGGTCAATCAT
255 AGTTAGGTCAATC-T
179815 TTGGGTACGATATCCTTCGTTGTGAAGTCGAAATCGTAGGTGACTCCTTCGTTGTGAAGTTGAGC
1 TTGGGTACGATATCCTTC-TTGTGAAGTCGAAATCGTAGGTGACTCCTTCGTTGTGAAGTTGAGC
*
179880 TTTGAACTAAAAAATCCTGAGCACA-ATATCCTTCATCATGAAGTTGAAACCGAGCTCAAAGCAT
65 TTTGAACTAAAAAATCCTGAGCA-AGATATCCTTCATCATGAAGCTGAAACCGAGCTCAAAGCAT
*
179944 TGGAAAGTCACTCTTGTATCGTCTTCTA-GCCTAATATACTTCATCGTGAAGCTGAAATTTGACC
129 TGGAAAGTCACTCATGTATCGTCTTCTAGGCC-AATATACTTCATCGTGAAGCTGAAATTTGACC
* * *
180008 TGAAGACTCTTGTATGAAACTGGCATTTTATTGTTGTGTTACATATGACTCCTTCGTCATGAAGT
193 TGAAGAATCTTGTATGAAACTAGCATTTTATTGTTGTGTTACAGATGACTCCTTCGTCATGAAGT
*
180073 TGGGTCAATCT
258 TAGGTCAATCT
* * * * *
180084 TTGGGTACAATATCCTTCATTGTGAAGTCGAAATCATATGTGGCTCATTCGTTGTGAAGTTGAGC
1 TTGGGTACGATATCCTTC-TTGTGAAGTCGAAATCGTAGGTGACTCCTTCGTTGTGAAGTTGAGC
180149 TTTGAA
65 TTTGAA
180155 TTGGATATTC
Statistics
Matches: 307, Mismatches: 25, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
269 69 0.22
270 226 0.74
271 12 0.04
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (268 bp):
TTGGGTACGATATCCTTCTTGTGAAGTCGAAATCGTAGGTGACTCCTTCGTTGTGAAGTTGAGCT
TTGAACTAAAAAATCCTGAGCAAGATATCCTTCATCATGAAGCTGAAACCGAGCTCAAAGCATTG
GAAAGTCACTCATGTATCGTCTTCTAGGCCAATATACTTCATCGTGAAGCTGAAATTTGACCTGA
AGAATCTTGTATGAAACTAGCATTTTATTGTTGTGTTACAGATGACTCCTTCGTCATGAAGTTAG
GTCAATCT
Found at i:180306 original size:89 final size:89
Alignment explanation
Indices: 180131--180310 Score: 245
Period size: 89 Copynumber: 2.0 Consensus size: 89
180121 ATGTGGCTCA
* * * * *
180131 TTCGTTGTGAAGTTGAGCTTTGAATTGGATATTCTTCGTTGTGAAGTTGAAATCCAATCTTGTAA
1 TTCGCTGTGAAGTTAAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTCAAATCCAATCTTGAAA
* *
180196 ATTAAATTGCTTTGAGATTAATAT
66 ACTAAATTGCTTCGAGATTAATAT
*
180220 TTCGCTGTGAAGTTAAGCTTTGAATTGGATGTCCTTCGTTGTGAAGTTCAAATCCAATCTTGAAA
1 TTCGCTGTGAAGTTAAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTCAAATCCAATCTTGAAA
** *
180285 ACTGCATTGGC-TCGAGTTTAATAT
66 ACTAAATT-GCTTCGAGATTAATAT
180309 TT
1 TT
180311 TTTCACTACG
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 77 0.97
90 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.41
Consensus pattern (89 bp):
TTCGCTGTGAAGTTAAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTCAAATCCAATCTTGAAA
ACTAAATTGCTTCGAGATTAATAT
Found at i:188739 original size:13 final size:13
Alignment explanation
Indices: 188721--188754 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
188711 AAAGTTGTAT
*
188721 ATTAATGCATAAC
1 ATTAATACATAAC
*
188734 ATTAATACATGAC
1 ATTAATACATAAC
188747 ATTAATAC
1 ATTAATAC
188755 CCTATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (13 bp):
ATTAATACATAAC
Found at i:192622 original size:11 final size:11
Alignment explanation
Indices: 192606--192647 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
192596 CTTATCCACG
192606 AATAAAAATAA
1 AATAAAAATAA
192617 AATAAAAATAA
1 AATAAAAATAA
*
192628 AGATAAAGATAA
1 A-ATAAAAATAA
*
192640 AAGAAAAA
1 AATAAAAA
192648 AATTAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:192628 original size:17 final size:18
Alignment explanation
Indices: 192606--192641 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
192596 CTTATCCACG
192606 AATAAAAATAAA-ATAAA
1 AATAAAAATAAAGATAAA
*
192623 AATAAAGATAAAGATAAA
1 AATAAAAATAAAGATAAA
192641 A
1 A
192642 GAAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
AATAAAAATAAAGATAAA
Found at i:209979 original size:42 final size:42
Alignment explanation
Indices: 209931--210018 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
209921 AATGTTTACT
* *
209931 GTCAATTTTTAAAAGAAAAATTTTGGGTTAGCAACTTTGGTA
1 GTCAATTTTTAAAAGAAAAATTTTGAGTTAGCAACTTCGGTA
*
209973 GTCAATTTTTAAAAGAAAAATTTTGAGTTAGCCACTTCGGTA
1 GTCAATTTTTAAAAGAAAAATTTTGAGTTAGCAACTTCGGTA
210015 GTCA
1 GTCA
210019 CGTGTAACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.36
Consensus pattern (42 bp):
GTCAATTTTTAAAAGAAAAATTTTGAGTTAGCAACTTCGGTA
Found at i:216960 original size:2 final size:2
Alignment explanation
Indices: 216953--216995 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
216943 CGAGTGTAAG
216953 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
216995 T
1 T
216996 GATTCTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:223049 original size:20 final size:20
Alignment explanation
Indices: 223024--223066 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
223014 ATGGTGTTTT
223024 CCTTGGTCACAATCTTGTTA
1 CCTTGGTCACAATCTTGTTA
223044 CCTTGGTCACAATCTTGTTA
1 CCTTGGTCACAATCTTGTTA
223064 CCT
1 CCT
223067 GGGCCTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (20 bp):
CCTTGGTCACAATCTTGTTA
Found at i:223606 original size:16 final size:16
Alignment explanation
Indices: 223585--223624 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
223575 ACAAACAGTT
*
223585 TTGTTGTTGTTTGTTA
1 TTGTTGTTGGTTGTTA
*
223601 TTGTTGTAGGTTGTTA
1 TTGTTGTTGGTTGTTA
*
223617 TGGTTGTT
1 TTGTTGTT
223625 ATCTAGGTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.07, C:0.00, G:0.30, T:0.62
Consensus pattern (16 bp):
TTGTTGTTGGTTGTTA
Found at i:225167 original size:2 final size:2
Alignment explanation
Indices: 225160--225195 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
225150 CGGTCCACTA
225160 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GCT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT CT C
225196 AATTTCCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
CT
Found at i:227259 original size:157 final size:157
Alignment explanation
Indices: 227053--227374 Score: 515
Period size: 157 Copynumber: 2.1 Consensus size: 157
227043 TTTTGTAAGT
* *
227053 ATTTTTAAAGTGATGTCTAATATGTAATTAATTTCTGTTAGGGTGATATTTTTGTAAAAACGTCA
1 ATTTTTAAAGTGATGCCTAATATATAATTAATTTCTGTTAGGGTGATATTTTTGTAAAAACGT-A
* * *
227118 ACTTTATCTATTT-TTTTTTT-T-ATATTATTTTTAACAATAGTTAATAATATTTTTTTACTTTT
65 ACTTTATCTATTTATTTTTTTGTGATATTATTTTTAACAATAGTTAAT-A-ATGTTATGACTTTT
227180 AAAATTAATTATTTAAAAATATTAAAATAA
128 AAAATTAATTATTTAAAAATATTAAAATAA
*
227210 ATTTTTAAAGTGATGCCTAATATATAATTAATTTTTGTTAGGGTGATATTTTTGTAAAAACGTAA
1 ATTTTTAAAGTGATGCCTAATATATAATTAATTTCTGTTAGGGTGATATTTTTGTAAAAACGTAA
*
227275 TTTTATCTATTTATTTTTTTGTGATATTATTTTTAACAATAGTTAATAATGTTATGACTTTTAAA
66 CTTTATCTATTTATTTTTTTGTGATATTATTTTTAACAATAGTTAATAATGTTATGACTTTTAAA
*
227340 ATTATTTATTTAAAAATATTAAAATAA
131 ATTAATTATTTAAAAATATTAAAATAA
*
227367 ACTTTTAA
1 ATTTTTAA
227375 TTACAAATTT
Statistics
Matches: 153, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
156 13 0.08
157 114 0.75
158 2 0.01
159 24 0.16
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (157 bp):
ATTTTTAAAGTGATGCCTAATATATAATTAATTTCTGTTAGGGTGATATTTTTGTAAAAACGTAA
CTTTATCTATTTATTTTTTTGTGATATTATTTTTAACAATAGTTAATAATGTTATGACTTTTAAA
ATTAATTATTTAAAAATATTAAAATAA
Found at i:227516 original size:6 final size:6
Alignment explanation
Indices: 227505--227529 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
227495 ATAAATATTA
227505 AATTTT AATTTT AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT A
227530 TTAAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:227988 original size:10 final size:10
Alignment explanation
Indices: 227973--228012 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
227963 TACATTATAT
227973 TTTTATTAAA
1 TTTTATTAAA
227983 TTTTATTAAA
1 TTTTATTAAA
*
227993 TTTTATTTATA
1 TTTTA-TTAAA
228004 TTTT-TTAAA
1 TTTTATTAAA
228013 AAAGTGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 4 0.15
10 15 0.56
11 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTATTAAA
Found at i:233545 original size:111 final size:111
Alignment explanation
Indices: 233351--233572 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 111
233341 TCTATATGTG
* *
233351 ATTTAGCCTATTATGTTATTTCTGGGCTTTTCCCTTTATTTTTGAATTATGATACTTTTGCCCCC
1 ATTTAGCATATTATGTTATTTCTGGGCATTTCCCTTTATTTTTGAATTATGATACTTTTGCCCCC
233416 ATTTGTTTTAGGTGAGTATAAACATATTGCACAAGTACAGTGGACT
66 ATTTGTTTTAGGTGAGTATAAACATATTGCACAAGTACAGTGGACT
233462 ATTTAGCATATTATG-TATTTTCTGGGCATTTCCCTTTATTTTTGAATTATGATACTTTTGCCCC
1 ATTTAGCATATTATGTTA-TTTCTGGGCATTTCCCTTTATTTTTGAATTATGATACTTTTGCCCC
* *
233526 CATTTGTTTTAGTTGAGTATAAACATATTGCGCAAGTACAGTGGACT
65 CATTTGTTTTAGGTGAGTATAAACATATTGCACAAGTACAGTGGACT
233573 GTTTGACATT
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
110 2 0.02
111 104 0.98
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (111 bp):
ATTTAGCATATTATGTTATTTCTGGGCATTTCCCTTTATTTTTGAATTATGATACTTTTGCCCCC
ATTTGTTTTAGGTGAGTATAAACATATTGCACAAGTACAGTGGACT
Found at i:238079 original size:38 final size:37
Alignment explanation
Indices: 238038--238175 Score: 140
Period size: 38 Copynumber: 3.7 Consensus size: 37
238028 TTCAAAGATT
* *
238038 ATATATATTATATGTTTTCAAACACCGTTTTAAAAAC
1 ATATATATTATATGTTTTCAAAAACCTTTTTAAAAAC
* ** *
238075 -TATATATTATACGTTTTCAAAAATATTTTTTCGAAAAC
1 ATATATATTATATGTTTTCAAAAA-CCTTTTT-AAAAAC
238113 -TATAT-TATATATGTTTTCAAAAACCATTTTTTAAAAA-
1 ATATATAT-TATATGTTTTCAAAAACC--TTTTTAAAAAC
238150 ACTATATATTATATGTTTTCAAAAAC
1 A-TATATATTATATGTTTTCAAAAAC
238176 TATATTATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
36 21 0.25
37 5 0.06
38 29 0.35
39 27 0.33
40 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (37 bp):
ATATATATTATATGTTTTCAAAAACCTTTTTAAAAAC
Found at i:238153 original size:39 final size:38
Alignment explanation
Indices: 238039--238175 Score: 174
Period size: 39 Copynumber: 3.6 Consensus size: 38
238029 TCAAAGATTA
* *
238039 TATATATTATATGTTTTCAAACACC--GTTTTAAAAAC
1 TATATATTATATGTTTTCAAAAACCATTTTTTAAAAAC
* * *
238075 TATATATTATACGTTTTCAAAAA-TATTTTTTCGAAAAC
1 TATATATTATATGTTTTCAAAAACCATTTTTT-AAAAAC
238113 TATAT-TATATATGTTTTCAAAAACCATTTTTTAAAAAAC
1 TATATAT-TATATGTTTTCAAAAACCATTTTTT-AAAAAC
238152 TATATATTATATGTTTTCAAAAAC
1 TATATATTATATGTTTTCAAAAAC
238176 TATATTATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
36 21 0.24
37 5 0.06
38 25 0.29
39 34 0.40
40 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (38 bp):
TATATATTATATGTTTTCAAAAACCATTTTTTAAAAAC
Found at i:238173 original size:24 final size:24
Alignment explanation
Indices: 238141--238199 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
238131 AAAAACCATT
*
238141 TTTTAAAAAACTATA-TATTATATG
1 TTTTCAAAAACTATATTA-TATATG
238165 TTTTCAAAAACTATATTATATATG
1 TTTTCAAAAACTATATTATATATG
*
238189 TCTTCAAAAAC
1 TTTTCAAAAAC
238200 CATTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 30 0.94
25 2 0.06
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.42
Consensus pattern (24 bp):
TTTTCAAAAACTATATTATATATG
Found at i:238175 original size:63 final size:62
Alignment explanation
Indices: 238097--238220 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 62
238087 GTTTTCAAAA
* * *
238097 ATATTTTTTCGAAAACTATATTATATATGTTTTCAAAAACCATTTTTTAAAAAACTATATATT
1 ATATGTTTTCAAAAACTATATTATATATGTCTTCAAAAACCATTTTTT-AAAAACTATATATT
238160 ATATGTTTTCAAAAACTATATTATATATGTCTTCAAAAACCATTTTTTAAAAACTATATAT
1 ATATGTTTTCAAAAACTATATTATATATGTCTTCAAAAACCATTTTTTAAAAACTATATAT
238221 ATTATATATT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
62 13 0.22
63 45 0.78
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (62 bp):
ATATGTTTTCAAAAACTATATTATATATGTCTTCAAAAACCATTTTTTAAAAACTATATATT
Found at i:239247 original size:22 final size:22
Alignment explanation
Indices: 239219--239260 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
239209 CTCTTGACAA
*
239219 TCTTGATTTTCTGATTCTTGGT
1 TCTTGATTTTCTGATCCTTGGT
*
239241 TCTTGATTTTTTGATCCTTG
1 TCTTGATTTTCTGATCCTTG
239261 ACAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.60
Consensus pattern (22 bp):
TCTTGATTTTCTGATCCTTGGT
Found at i:244155 original size:210 final size:215
Alignment explanation
Indices: 243771--244197 Score: 810
Period size: 210 Copynumber: 2.0 Consensus size: 215
243761 AGCATTGAGT
243771 TTTGATCTATCTCTCAGCCCAATTCTGAGAATAATTTAGTGAACGAACCAATTGAATTAGAAGTG
1 TTTGATCTATCTCTCAGCCCAATTCTGAGAATAATTTAGTGAACGAACCAATTGAATTAGAAGTG
243836 GTCTCAGGTAGTATAGAACTACAACAGGAACATAAACTTTCAGACTTGTCAAAAAACGACCAAGT
66 GTCTCAGGTAGTATAGAACTACAACAGGAACATAAACTTTCAGACTTGTCAAAAAACGACCAAGT
243901 TCTAAGAGCAGAAGATAGGAATGACCATCGGGTTTTAACCCCTAAAAATC-GTGTGAGCCAGTA-
131 TCTAAGAGCAGAAGATAGGAATGACCATCGGGTTTTAACCCCTAAAAATCGGTGTGAGCCAGTAG
243964 TC-GTGGAGGTGGAAAAAAC
196 TCGGTGGAGGTGGAAAAAAC
243983 TTTGATCTATCTCTCAG-CCAATTCTGAGAATAATTTAGTGAACGAACCAATTGAATTAGAAGT-
1 TTTGATCTATCTCTCAGCCCAATTCTGAGAATAATTTAGTGAACGAACCAATTGAATTAGAAGTG
244046 GTCTCAGGTAGTATAGAACTACAACAGGAACATAAACTTTCAGACTTGTCAAAAAACGACCAAGT
66 GTCTCAGGTAGTATAGAACTACAACAGGAACATAAACTTTCAGACTTGTCAAAAAACGACCAAGT
*
244111 TCTAAGAGCAGAAGATAGGAATGACCATCGGGTTTTATCCCCTAAAAATCGGTGTGAGCCAGTAG
131 TCTAAGAGCAGAAGATAGGAATGACCATCGGGTTTTAACCCCTAAAAATCGGTGTGAGCCAGTAG
244176 TCGGTGGAGGTGGAAAAAAC
196 TCGGTGGAGGTGGAAAAAAC
244196 TT
1 TT
244198 CTATAGTAGG
Statistics
Matches: 211, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
210 114 0.54
211 59 0.28
212 19 0.09
213 19 0.09
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (215 bp):
TTTGATCTATCTCTCAGCCCAATTCTGAGAATAATTTAGTGAACGAACCAATTGAATTAGAAGTG
GTCTCAGGTAGTATAGAACTACAACAGGAACATAAACTTTCAGACTTGTCAAAAAACGACCAAGT
TCTAAGAGCAGAAGATAGGAATGACCATCGGGTTTTAACCCCTAAAAATCGGTGTGAGCCAGTAG
TCGGTGGAGGTGGAAAAAAC
Found at i:244914 original size:22 final size:21
Alignment explanation
Indices: 244884--244930 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
244874 TAAATTATAT
*
244884 ATAATATATAATAATAAAAAAA
1 ATAAAATATAA-AATAAAAAAA
* *
244906 ATAAAATATAAAATTAAAACA
1 ATAAAATATAAAATAAAAAAA
244927 ATAA
1 ATAA
244931 GGAAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
ATAAAATATAAAATAAAAAAA
Found at i:245134 original size:23 final size:22
Alignment explanation
Indices: 245108--245155 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
245098 ACTTGGGACT
* *
245108 AAAATAAAATTATATTAAATTCA
1 AAAATAAAATTAAAATAAATT-A
*
245131 AAAATCAAATTAAAATAAATTA
1 AAAATAAAATTAAAATAAATTA
245153 AAA
1 AAA
245156 CATGTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAAATTAAAATAAATTA
Found at i:247089 original size:237 final size:233
Alignment explanation
Indices: 246665--247350 Score: 1016
Period size: 237 Copynumber: 2.9 Consensus size: 233
246655 GAACCAAATT
* * * *
246665 AAGGTTGAACAAGTTTTTTTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * *
246729 TGAACACT-TCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCAAACAAATGTTG
66 TGAAC-CTATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAGAATCAAGCAAAAGTTG
*
246793 AACAAGTTCTTCTCATTATGAACTTATTCTCCCTCTTCAGATGAGTTCTTCTCATTATGAACTCT
130 AACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCT
* *
246858 ACCTGGGAATGTTGATCCATCAAGTGATGAATTCGAGAAA
195 -CCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGAAA
*
246898 AAGGTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * *
246963 TGAACTCTATTTGGAAATATTGATGATGATCTATCTCCTTCTGTGATAGATTCGAGCAAAAGATT
66 TGAAC-CTATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAGAATCAAGCAAAAG-TT
* * * *
247028 GAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTATCATTATGAACT
129 GAACAAGTTCTTCTCATTATGAACTTATTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAAC-
* * * * *
247093 TCTTCTGGAAAAGTTGATTCATCGAGTGGTGAATTCGAGCAA
192 TCTCCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGAAA
*
247135 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTG
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
247200 TGAACCTTATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAGAATCAAGCAAAAGGTT
66 TGAACC-TATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAGAATCAAGCAAAA-GTT
* * *
247265 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTT
129 GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTC
247330 TCTCTGGAAAAGTTGATCCAT
194 TC-CTGGAAAAGTTGATCCAT
247351 TGAGTAATGG
Statistics
Matches: 405, Mismatches: 40, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
233 31 0.08
234 35 0.09
235 47 0.12
236 77 0.19
237 211 0.52
238 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (233 bp):
AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACCTATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAGAATCAAGCAAAAGTTGA
ACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTC
CTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGAAA
Found at i:247102 original size:124 final size:124
Alignment explanation
Indices: 246888--247339 Score: 624
Period size: 124 Copynumber: 3.7 Consensus size: 124
246878 CAAGTGATGA
* *
246888 ATTCGAGAAAAAGGTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTT
1 ATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTT
* * *
246953 CTTCTCATTATGAACTCTATTTGGAAATATTGATGATGATCTATCTCCTTCTGTGATAG
66 CTTCTCATTATGAACTTTATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAG
* *
247012 ATTCGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTT
1 ATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTT
* * * * *
247077 CTTATCATTATGAACTTCT-TCTGGAAA-A--GTTGAT--TC-ATC-GAGT-GGTG--A-
66 CTTCTCATTATGAACTT-TATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAG
247125 ATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTT
1 ATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTT
* *
247190 CTTCTCATTGTGAACCTTATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAG
66 CTTCTCATTATGAACTTTATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAG
* * * * *
247249 AATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTT
1 ATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTT
*
247313 CTTCTCATTATGAACTTTCTCTGGAAA
66 CTTCTCATTATGAACTTTATCTGGAAA
247340 AGTTGATCCA
Statistics
Matches: 286, Mismatches: 29, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
112 1 0.00
113 85 0.30
114 2 0.01
116 8 0.03
117 1 0.00
118 5 0.02
119 5 0.02
120 2 0.01
121 8 0.03
123 39 0.14
124 129 0.45
125 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (124 bp):
ATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTT
CTTCTCATTATGAACTTTATCTGGAAATATTGATGATGATCTATCTCATTCTGTGATAG
Found at i:247213 original size:113 final size:114
Alignment explanation
Indices: 247005--247355 Score: 415
Period size: 113 Copynumber: 3.0 Consensus size: 114
246995 ATCTCCTTCT
* *
247005 GTGATAG-ATTCGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCA
1 GTGATAGAATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
* *
247069 GATGAGTTCTTATCATTATGAA-CTTCTTCTGGAAAAGTTGATTCATCGA
66 GATGAGTTCTTCTCATTATGAACCTT-ATCTGGAAAAGTTGATTCATCGA
*
247118 GTGGT-GAATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1 GTGATAGAATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
* * *
247182 GATGAGTTCTTCTCATTGTGAACCTTATCTGGAAATATTGATGATGATCTATCTCA
66 GATGAGTTCTTCTCATTATGAACCTTATCTGGAAA-A--GTTGAT--TC-ATC-GA
* * *
247238 TTCTGTGATAGAA-TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TC
1 ----GTGATAGAATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
* * * * *
247301 TTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATTGA
62 TTCAGATGAGTTCTTCTCATTATGAACCTTATCTGGAAAAGTTGATTCATCGA
247354 GT
1 GT
247356 AATGGATTCA
Statistics
Matches: 204, Mismatches: 20, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
112 3 0.01
113 87 0.43
114 4 0.02
116 6 0.03
117 2 0.01
118 3 0.01
119 3 0.01
120 6 0.03
122 1 0.00
123 37 0.18
124 49 0.24
125 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (114 bp):
GTGATAGAATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACCTTATCTGGAAAAGTTGATTCATCGA
Found at i:248942 original size:16 final size:16
Alignment explanation
Indices: 248913--248969 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
248903 TTTCTATATA
248913 TTTT-TTCATCATTTT
1 TTTTCTTCATCATTTT
*
248928 TTTTCTTCTTCATTTT
1 TTTTCTTCATCATTTT
248944 TCTTT-TTCATCATTTT
1 T-TTTCTTCATCATTTT
248960 TTCTTCTTCA
1 TT-TTCTTCA
248970 AACATAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.14
16 24 0.67
17 7 0.19
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTCATCATTTT
Found at i:260779 original size:23 final size:22
Alignment explanation
Indices: 260753--260800 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
260743 ACTTGGGACT
* *
260753 AAAATAAAATTATATTAAATTCA
1 AAAATAAAATTAAAATAAATT-A
260776 AAAATAAAATTAAAATAAATTA
1 AAAATAAAATTAAAATAAATTA
260798 AAA
1 AAA
260801 CATGTTGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAAATTAAAATAAATTA
Found at i:261946 original size:3 final size:3
Alignment explanation
Indices: 261940--262015 Score: 83
Period size: 3 Copynumber: 26.3 Consensus size: 3
261930 TATTATTAAT
261940 TAA TAA TAA TAA TAA T-A TAA CT-A TAA -AA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA
261984 TAA TAA TAA -ACA -AA TAA -AA TAA TAA TAA TAA T
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA T
262016 GAAAAAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
2 9 0.14
3 52 0.80
4 4 0.06
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:264715 original size:15 final size:15
Alignment explanation
Indices: 264695--264754 Score: 86
Period size: 15 Copynumber: 4.0 Consensus size: 15
264685 TAATAAGGTT
*
264695 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
264710 ATTTATTATAAAATA
1 ATTTATTATAAAATA
264725 ATTTAGTT-TAAAATA
1 ATTTA-TTATAAAATA
*
264740 AATTATTATAAAATA
1 ATTTATTATAAAATA
264755 TGGATTGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
14 2 0.05
15 37 0.90
16 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:264735 original size:30 final size:30
Alignment explanation
Indices: 264695--264754 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
264685 TAATAAGGTT
* *
264695 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTAGTTTAAAATAAATTATTATAAAATA
264725 ATTTAGTTTAAAATAAATTATTATAAAATA
1 ATTTAGTTTAAAATAAATTATTATAAAATA
264755 TGGATTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
ATTTAGTTTAAAATAAATTATTATAAAATA
Found at i:264789 original size:32 final size:32
Alignment explanation
Indices: 264753--265465 Score: 355
Period size: 32 Copynumber: 23.7 Consensus size: 32
264743 TATTATAAAA
264753 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
264785 TATGGATTGGTTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
264807 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
264839 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
264861 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
264893 TATGGATTGATTTATTTT--A-AA---A-TA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
264917 TA--GATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
**
264947 TATGGATTGATTTATTTTAAA-ATATGGATT-G
1 TATGGATTGATTTATTTTAAATA-ATTTATTAG
** *
264978 -ATTTATT-ATTGTATTTGTATAGATTGATTTATT--
1 TATGGATTGATT-TATTT-TA-A-A-TAATTTATTAG
* * * * * *
265011 T-T-AAATAATTTATTTGTATGGATTGATTTATTTTAA
1 TATGGATTGATTTATTT-TA---AATAATTTA--TTAG
* * * *
265047 AAT--ATAGA-TTAATTT--ATTATTGTAGTT-G
1 TATGGATTGATTTATTTTAAATAATT-TA-TTAG
265075 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
265107 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
265129 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
265161 TATGAATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
**
265193 TATGGATTGATTTATTTTAAA-ATATGGATT-G
1 TATGGATTGATTTATTTTAAATA-ATTTATTAG
** * *
265224 -ATTTATT-ATTGTAGTTGTATAGATTGATTTATT--
1 TATGGATTGATT-TA-TT-T-TA-AATAATTTATTAG
* * * * *
265257 T-T-AAATAATTTATTTGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTT-TA-A-A-TAATTTA--TT--AG
265295 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
265327 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
265359 TATAGATTAATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
265381 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
265413 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
265445 TATAGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
265466 ATATGGATTG
Statistics
Matches: 533, Mismatches: 56, Indels: 184
0.69 0.07 0.24
Matches are distributed among these distances:
22 67 0.13
23 15 0.03
24 3 0.01
25 8 0.02
26 13 0.02
28 15 0.03
29 19 0.04
30 30 0.06
31 34 0.06
32 264 0.50
33 16 0.03
34 19 0.04
35 5 0.01
36 8 0.02
37 2 0.00
38 2 0.00
39 3 0.01
40 10 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:264800 original size:54 final size:54
Alignment explanation
Indices: 264742--265482 Score: 698
Period size: 54 Copynumber: 13.5 Consensus size: 54
264732 TTAAAATAAA
* *
264742 TTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGGT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
264796 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
264850 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *
264904 TTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * *
264958 TTATTTTAAAATATGGATTGATTTA--TT--AT--TGTATTTGTATAGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
** *
265006 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTAATTTA-
1 TTATTTT--A-AA---A----TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* ***
265063 TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
*
265118 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * * ** * * *
265172 TTATTTT-AAATA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGAT
*** * * *
265226 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTTGTATAGATTGAT
1 TTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
265284 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * * * *
265338 TTATTTT-AAATA---ATTTATTT-GTATAGATTAATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGAT
* *
265392 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGAT
1 TTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
265456 TTATTTTAAAATATGGATTGATTTATT
1 TTATTTTAAAATATGGATTGATTTATT
265483 ATTGTAGTTG
Statistics
Matches: 569, Mismatches: 64, Indels: 108
0.77 0.09 0.15
Matches are distributed among these distances:
48 42 0.07
49 5 0.01
50 36 0.06
51 2 0.00
52 8 0.01
53 13 0.02
54 330 0.58
55 15 0.03
56 4 0.01
57 9 0.02
58 34 0.06
59 5 0.01
60 9 0.02
61 1 0.00
62 17 0.03
63 3 0.01
64 14 0.02
65 2 0.00
66 2 0.00
68 15 0.03
69 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
Found at i:264810 original size:22 final size:22
Alignment explanation
Indices: 264785--264827 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
264775 AATTTATTAG
*
264785 TATGGATTGGTTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
264807 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
264828 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:264864 original size:22 final size:22
Alignment explanation
Indices: 264839--264881 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
264829 AATTTATTAG
264839 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
264861 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
264882 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:265039 original size:18 final size:17
Alignment explanation
Indices: 264989--265461 Score: 70
Period size: 18 Copynumber: 28.3 Consensus size: 17
264979 TTTATTATTG
264989 TATTTGTATAGATTGATT
1 TATTTGTAT-GATTGATT
* *
265007 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
265021 TATTTGTATGGATTGATT
1 TATTTGTAT-GATTGATT
**
265039 TATTT-TAAAATATAGA-T
1 TATTTGTATGAT-T-GATT
* *
265056 TAATT-TATTATTG---
1 TATTTGTATGATTGATT
*
265069 TAGTTGTATGGATTGATT
1 TATTTGTAT-GATTGATT
* *
265087 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
*
265101 TATTAGTATGGATTGATT
1 TATTTGTAT-GATTGATT
*
265119 TATTTTAAAATATGGATTGATT
1 TA-TTT---GTAT-GATTGATT
* *
265141 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
*
265155 TATTAGTATGAATTGATT
1 TATTTGTATG-ATTGATT
* *
265173 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
265187 TATTTGTATGGATTGATT
1 TATTTGTAT-GATTGATT
**
265205 TATTT-TAAAATATGGATT
1 TATTTGTATGAT-T-GATT
* *
265223 GA-TT-TATTATTG---
1 TATTTGTATGATTGATT
*
265235 TAGTTGTATAGATTGATT
1 TATTTGTAT-GATTGATT
* *
265253 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
265267 TATTTGTATAGATTGATT
1 TATTTGTAT-GATTGATT
*
265285 TATTTTAAAATATGGATTGATT
1 TA-TTT---GTAT-GATTGATT
* *
265307 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
*
265321 TATTAGTATGGATTGATT
1 TATTTGTAT-GATTGATT
* *
265339 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
*
265353 TATTTGTATAGATTAATT
1 TATTTGTAT-GATTGATT
*
265371 TATTTTAAAATATGGATTGATT
1 TA-TTT---GTAT-GATTGATT
* *
265393 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
*
265407 TATTAGTATGGATTGATT
1 TATTTGTAT-GATTGATT
* *
265425 TATTT-TA--AATAATT
1 TATTTGTATGATTGATT
265439 TATTTGTATAGATTGATT
1 TATTTGTAT-GATTGATT
265457 TATTT
1 TATTT
265462 TAAAATATGG
Statistics
Matches: 327, Mismatches: 65, Indels: 126
0.63 0.13 0.24
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 92 0.28
15 28 0.09
16 6 0.02
17 39 0.12
18 99 0.30
19 8 0.02
21 9 0.03
22 39 0.12
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (17 bp):
TATTTGTATGATTGATT
Found at i:265132 original size:22 final size:22
Alignment explanation
Indices: 265107--265149 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
265097 AATTTATTAG
265107 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
265129 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
265150 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:265157 original size:14 final size:14
Alignment explanation
Indices: 265138--265191 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
265128 ATATGGATTG
265138 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
265152 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
265170 ATTTATTTTAAATA
1 ATTTATTTTAAATA
265184 ATTTATTT
1 ATTTATTT
265192 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:265189 original size:166 final size:165
Alignment explanation
Indices: 264753--265562 Score: 1081
Period size: 166 Copynumber: 4.9 Consensus size: 165
264743 TATTATAAAA
* *
264753 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGGTTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
264818 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---A----TATGGATTGATT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
* * * ***
264873 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
131 TATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTATTG
*
264915 TATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * *
264980 TTA--TT--AT--TGTATTTGTATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
*
265039 TATTTTAAAATATAGATTAATTTATTATTGTAGTTG
131 TATTTTAAAATATAGATTGATTTATTATTGTA-TTG
*
265075 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
265140 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
*
265205 TATTTTAAAATATGGATTGATTTATTATTGTAGTTG
131 TATTTTAAAATATAGATTGATTTATTATTGTA-TTG
* *
265241 TATAGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
265306 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTAATT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
* *
265371 TATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
131 TATTTTAAAATATAGATTGATTTA--TT--AT--TGTATT-G
*
265413 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
265478 TTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
66 TTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGAT
265536 TTATTTTAAAATATAGATTGATTTATT
130 TTATTTTAAAATATAGATTGATTTATT
265563 TTAAATAATT
Statistics
Matches: 589, Mismatches: 34, Indels: 48
0.88 0.05 0.07
Matches are distributed among these distances:
156 23 0.04
158 3 0.01
159 9 0.02
160 74 0.13
161 3 0.01
162 70 0.12
164 6 0.01
165 2 0.00
166 316 0.54
167 2 0.00
168 4 0.01
170 4 0.01
171 2 0.00
172 71 0.12
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (165 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
TATTTTAAAATATAGATTGATTTATTATTGTATTG
Done.