Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 89
Found at i:4577934 original size:20 final size:20
Alignment explanation
Indices: 4577872--4577955 Score: 93
Period size: 20 Copynumber: 4.2 Consensus size: 20
4577862 CAAGTCTTCG
4577872 GTATGAATACCTAACCTTTA
1 GTATGAATACCTAACCTTTA
* *
4577892 GTATGGATACC-AAGCTTTCA
1 GTATGAATACCTAACCTTT-A
*
4577912 GTATGAATACCTAATCTTTA
1 GTATGAATACCTAACCTTTA
4577932 GTAT-ACATA-CTAAGCCTTTA
1 GTATGA-ATACCTAA-CCTTTA
4577952 GTAT
1 GTAT
4577956 CAACAACAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.20
20 38 0.69
21 6 0.11
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (20 bp):
GTATGAATACCTAACCTTTA
Found at i:4577955 original size:40 final size:40
Alignment explanation
Indices: 4577858--4577955 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
4577848 TTCGATACGA
* **
4577858 ATACCAAG-TCTTCGGTATGAATACCTAACCTTTAGTATGG
1 ATACCAAGCT-TTCAGTATGAATACCTAACCTTTAGTATAC
*
4577898 ATACCAAGCTTTCAGTATGAATACCTAATCTTTAGTATAC
1 ATACCAAGCTTTCAGTATGAATACCTAACCTTTAGTATAC
*
4577938 ATACTAAGCCTTT-AGTAT
1 ATACCAAG-CTTTCAGTAT
4577956 CAACAACAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 46 0.90
41 5 0.10
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (40 bp):
ATACCAAGCTTTCAGTATGAATACCTAACCTTTAGTATAC
Found at i:4579354 original size:20 final size:20
Alignment explanation
Indices: 4579329--4579368 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4579319 AGGGCAATAT
4579329 CGATACCCAATTCAGAAGTA
1 CGATACCCAATTCAGAAGTA
* * *
4579349 CGATACTCAGTTCAGGAGTA
1 CGATACCCAATTCAGAAGTA
4579369 TCAATATTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
CGATACCCAATTCAGAAGTA
Found at i:4579432 original size:20 final size:20
Alignment explanation
Indices: 4579407--4579444 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4579397 ATAGTCAATT
4579407 AGTATCGATACCCAGAGGTA
1 AGTATCGATACCCAGAGGTA
4579427 AGTATCGATACCCAGAGG
1 AGTATCGATACCCAGAGG
4579445 ACAATACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTATCGATACCCAGAGGTA
Found at i:4580856 original size:54 final size:54
Alignment explanation
Indices: 4580761--4581209 Score: 471
Period size: 54 Copynumber: 8.4 Consensus size: 54
4580751 ATCTTTTCTA
* * * * * ** **
4580761 TGTAATGCACCCGTAGTGCCCATACGATCATTCATAAACATATTATGAATTCCG
1 TGTAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCG
** * * * *
4580815 TGTTTTGCACCCATAGTGCCGAAACGATTATTCATCCACATAGGATGAATTTCA
1 TGTAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCG
* * * *
4580869 TGAAATACACAATTAGTGTCGAAAC-AGTTATTCATCCACATAGG-TGAATTCCG
1 TGTAATGCACACTTAGTGCCGAAACGA-TTATTCATCCACATAGGATGAATTCCG
* *
4580922 T-TAAATGCACACTTAGTGCCGAAACGGTTAGTCATCCACATAGGATGAATTCCG
1 TGT-AATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCG
* * *
4580976 T-TAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGTATCCCG
1 TGT-AATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCG
* * **
4581030 T-TAAATGCACACTTAGTGCCGAAA-TAGTTATTCATCCACAAAGGATGAATTATG
1 TGT-AATGCACACTTAGTGCCGAAACGA-TTATTCATCCACATAGGATGAATTCCG
* * *
4581084 TGAAATGCACACTTACTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCG
1 TGTAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCG
* * * *
4581138 TGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATT-CA
1 TGTAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCG
* *
4581191 TGAAATGCACAATTAGTGC
1 TGTAATGCACACTTAGTGC
4581210 TTATTTGGTA
Statistics
Matches: 338, Mismatches: 50, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
53 62 0.18
54 276 0.82
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (54 bp):
TGTAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCG
Found at i:4580951 original size:27 final size:27
Alignment explanation
Indices: 4580921--4581005 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
4580911 GGTGAATTCC
4580921 GTTAAATGCACACTTAGTGCCGAAACG
1 GTTAAATGCACACTTAGTGCCGAAACG
* * ** * *
4580948 GTT-AGT-CATCCACATAG-GATGAATTCC
1 GTTAAATGCA--CACTTAGTGCCGAA-ACG
4580975 GTTAAATGCACACTTAGTGCCGAAACG
1 GTTAAATGCACACTTAGTGCCGAAACG
4581002 GTTA
1 GTTA
4581006 TTCATCCACA
Statistics
Matches: 40, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
25 2 0.05
26 6 0.15
27 24 0.60
28 6 0.15
29 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (27 bp):
GTTAAATGCACACTTAGTGCCGAAACG
Found at i:4581079 original size:108 final size:107
Alignment explanation
Indices: 4580828--4581209 Score: 561
Period size: 108 Copynumber: 3.6 Consensus size: 107
4580818 TTTGCACCCA
* * *
4580828 TAGTGCCGAAACGATTATTCATCCACATAGGATGAATTTCATGAAATACACAATTAGTGTCGAAA
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAA-TTCATGAAATGCACAATTAGTGCCGAAA
*
4580893 CAGTTATTCATCCACATAGG-TGAATTCCGTTAAATGCACACT
65 CGGTTATTCATCCACATAGGATGAATTCCGTTAAATGCACACT
* * * *
4580935 TAGTGCCGAAACGGTTAGTCATCCACATAGGATGAATTCCGTTAAATGCACACTTAGTGCCGAAA
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATT-CATGAAATGCACAATTAGTGCCGAAA
* *
4581000 CGGTTATTCATCCACATAGGATGTATCCCGTTAAATGCACACT
65 CGGTTATTCATCCACATAGGATGAATTCCGTTAAATGCACACT
** * * *
4581043 TAGTGCCGAAATAGTTATTCATCCACAAAGGATGAATT-ATGTGAAATGCACACTTACTGCCGAA
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCA--TGAAATGCACAATTAGTGCCGAA
*
4581107 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
64 ACGGTTATTCATCCACATAGGATGAATTCCGTTAAATGCACACT
*
4581151 TAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCATGAAATGCACAATTAGTGC
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCATGAAATGCACAATTAGTGC
4581210 TTATTTGGTA
Statistics
Matches: 244, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
106 2 0.01
107 91 0.37
108 150 0.61
109 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (107 bp):
TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCATGAAATGCACAATTAGTGCCGAAAC
GGTTATTCATCCACATAGGATGAATTCCGTTAAATGCACACT
Found at i:4581137 original size:162 final size:161
Alignment explanation
Indices: 4580805--4581209 Score: 569
Period size: 161 Copynumber: 2.5 Consensus size: 161
4580795 TAAACATATT
*** * * * **
4580805 ATGAATTCCGTGTTTTGCACCCATAGTGCCGAAACGATTATTCATCCACATAGGATGAATTTCAT
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATCCCAT
* * * *
4580870 GAAATACACAATTAGTGTCGAAACAGTTATTCATCCACATAGGTGAATTCCGTTAAATGCACACT
66 GAAATACACAATTAGTGCCGAAACAGTTATTCATCCACAAAGGTGAATTACGTGAAATGCACACT
*
4580935 TAGTGCCGAAACGGTTAGTCATCCACATAGG
131 TACTGCCGAAACGGTTAGTCATCCACATAGG
* * *
4580966 ATGAATTCCGTTAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGTATCCCGT
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATCCCAT
* * * * *
4581031 TAAATGCACACTTAGTGCCGAAATAGTTATTCATCCACAAAGGATGAATTATGTGAAATGCACAC
66 GAAATACACAATTAGTGCCGAAACAGTTATTCATCCACAAAGG-TGAATTACGTGAAATGCACAC
*
4581096 TTACTGCCGAAACGGTTATTCATCCACATAGG
130 TTACTGCCGAAACGGTTAGTCATCCACATAGG
* *
4581128 ATGAATTCCGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAAT-TCAT
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATCCCAT
*
4581192 GAAATGCACAATTAGTGC
66 GAAATACACAATTAGTGC
4581210 TTATTTGGTA
Statistics
Matches: 214, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
161 109 0.51
162 105 0.49
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (161 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATCCCAT
GAAATACACAATTAGTGCCGAAACAGTTATTCATCCACAAAGGTGAATTACGTGAAATGCACACT
TACTGCCGAAACGGTTAGTCATCCACATAGG
Found at i:4581697 original size:19 final size:20
Alignment explanation
Indices: 4581629--4581700 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 20
4581619 ATGTTGCCTG
*
4581629 GTATCGATA-CCCTTACCAT
1 GTATCGATACCCCCTACCAT
* *
4581648 GATATCGATACTACCCTACTAT
1 G-TATCGATAC-CCCCTACCAT
*
4581670 GGTACCGATACCCCCTACCA-
1 -GTATCGATACCCCCTACCAT
4581690 GTATCGATACC
1 GTATCGATACC
4581701 AAAATTAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 11 0.26
20 8 0.19
21 7 0.17
22 15 0.36
23 1 0.02
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
GTATCGATACCCCCTACCAT
Found at i:4581697 original size:95 final size:95
Alignment explanation
Indices: 4581569--4581757 Score: 261
Period size: 95 Copynumber: 2.0 Consensus size: 95
4581559 GATACTTCTA
* **** * *
4581569 TACTATGGTACCGATACCCCTTTTGGGTATCGATACCAAAAATAGGTTCGATGTTGCCTGGTATC
1 TACTATGGTACCGATACCCCCTACCAGTATCGATACCAAAAATAGATTCGATGTTGCCTGGTAAC
4581634 GATACCCTTACCATGATATCGATACTACCC
66 GATACCCTTACCATGATATCGATACTACCC
* * *
4581664 TACTATGGTACCGATACCCCCTACCAGTATCGATACCAAAATTAGATTCGATGTTTCTTGGTAAC
1 TACTATGGTACCGATACCCCCTACCAGTATCGATACCAAAAATAGATTCGATGTTGCCTGGTAAC
* * *
4581729 GATACCTTTTCCATGGTATCGATACTACC
66 GATACCCTTACCATGATATCGATACTACC
4581758 TCATTAGTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 81 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (95 bp):
TACTATGGTACCGATACCCCCTACCAGTATCGATACCAAAAATAGATTCGATGTTGCCTGGTAAC
GATACCCTTACCATGATATCGATACTACCC
Found at i:4581793 original size:21 final size:21
Alignment explanation
Indices: 4581763--4581813 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
4581753 CTACCTCATT
4581763 AGTATCGATGCTGATTGAATC
1 AGTATCGATGCTGATTGAATC
*
4581784 AGTATTGATGCTGATTGAATC
1 AGTATCGATGCTGATTGAATC
4581805 AGTATCGAT
1 AGTATCGAT
4581814 ACTACTTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (21 bp):
AGTATCGATGCTGATTGAATC
Found at i:4587857 original size:54 final size:54
Alignment explanation
Indices: 4587795--4588119 Score: 425
Period size: 54 Copynumber: 6.0 Consensus size: 54
4587785 CATAGTACCA
** * * *
4587795 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATAAACAATTATTACCG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* * *
4587849 AAATGGTTATTCATCCATATAGGATGAATTCCGTTAAATGCACACTTAGTGCCG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* * *
4587903 CAACGGTTATTCATCCGCATAGGATGAATTCCGTTAAATGCACACTTAGTGCCG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* * *
4587957 AAACAGTTATTCATCCACATAGGATGAATTACATGAAATGCACACTTAGTGCCG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* * * * *
4588011 AAACGGTTATTCATCCATATATATGATAAATTCCGTGAAATGCACACTTAGCGCTG
1 AAACGGTTATTCATCC--ACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* ** *
4588067 AAACGATTATTCATCCACATAGGATGAATTTTGTGAAATGCACAATTAGTGCC
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
4588120 TATTTGGTAA
Statistics
Matches: 234, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
54 188 0.80
56 46 0.20
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (54 bp):
AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
Found at i:4588558 original size:20 final size:20
Alignment explanation
Indices: 4588533--4588608 Score: 84
Period size: 22 Copynumber: 3.8 Consensus size: 20
4588523 TTCGATGTTG
*
4588533 CATGGTATCGATACCCTTAC
1 CATGGTATCGATACCCCTAC
4588553 CATGGTATCGATACTACCCTAC
1 CATGGTATCGATAC--CCCTAC
* *
4588575 TATGGTACCGATACCCCCTAC
1 CATGGTATCGATA-CCCCTAC
4588596 C--GGTATCGATACC
1 CATGGTATCGATACC
4588609 AAAATTAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.04
19 9 0.19
20 14 0.29
21 6 0.12
22 16 0.33
23 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (20 bp):
CATGGTATCGATACCCCTAC
Found at i:4588605 original size:95 final size:95
Alignment explanation
Indices: 4588477--4588665 Score: 283
Period size: 95 Copynumber: 2.0 Consensus size: 95
4588467 GATACTTATA
* * *
4588477 TACTATGGTACCGATACCCCCTTCGGGTATCGATACC-AAATATAGGTTCGA-TGTTGCATGGTA
1 TACTATGGTACCGATACCCCCTACCGGTATCGATACCAAAAT-TAGATTC-ATTGTTGCATGGTA
4588540 TCGATACCCTTACCATGGTATCGATACTACCC
64 TCGATACCCTTACCATGGTATCGATACTACCC
* *
4588572 TACTATGGTACCGATACCCCCTACCGGTATCGATACCAAAATTAGATTCATTGTTTCTTGGTATC
1 TACTATGGTACCGATACCCCCTACCGGTATCGATACCAAAATTAGATTCATTGTTGCATGGTATC
* *
4588637 GGTACCTTTACCATGGTATCGATACTACC
66 GATACCCTTACCATGGTATCGATACTACC
4588666 TCATCAGTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
94 1 0.01
95 80 0.94
96 4 0.05
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (95 bp):
TACTATGGTACCGATACCCCCTACCGGTATCGATACCAAAATTAGATTCATTGTTGCATGGTATC
GATACCCTTACCATGGTATCGATACTACCC
Found at i:4591316 original size:23 final size:22
Alignment explanation
Indices: 4591277--4591346 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
4591267 TTCCTAAAAC
**
4591277 CCTAAAAATACTCAAGATAATT
1 CCTAAAAATACAAAAGATAATT
*
4591299 CCTAAAAATCACAAAAGACAATTT
1 CCTAAAAAT-ACAAAAGATAA-TT
** *
4591323 CCTAAAGTTGCAAAAGATAATT
1 CCTAAAAATACAAAAGATAATT
4591345 CC
1 CC
4591347 CTTAATTGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 13 0.33
23 17 0.44
24 9 0.23
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (22 bp):
CCTAAAAATACAAAAGATAATT
Found at i:4597568 original size:57 final size:57
Alignment explanation
Indices: 4597388--4598056 Score: 1034
Period size: 57 Copynumber: 11.7 Consensus size: 57
4597378 ATATCCAATA
* * * **
4597388 CTGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCAG-ATGAAGTGCCCTAT
1 CTGAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGC-GTACGAAACGCCCTAT
* *
4597446 CTGGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCGTACGAAACGCCTTAT
1 CT-GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCTAT
* * *
4597505 ATGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATATGAAACGCCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
* *
4597562 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATATGAAACGCCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
* *
4597619 CTGAAATTCATACACATAGTATGATTTCTTAAAATTTTAGCGTACGAAACGCCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
* * **
4597676 CTGAAATTTATACACTTAGTATGATTTGTTAACATTTTAGCGTACGAAATACCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
*
4597733 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
* *
4597790 TTGAAATTTATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
* *
4597847 CTGAAATTCATACAATTAGTATGATTTCTTAACATTTTAGCGTACGAAACGTCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
**
4597904 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACATCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
* * *
4597961 TTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGTGTACGAAATGCCCTAT
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
*
4598018 CTGAAATTCATACACTTAGTATGATTTTTTAACATTTTA
1 CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTA
4598057 AACACTTAGT
Statistics
Matches: 568, Mismatches: 40, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
57 491 0.86
58 32 0.06
59 45 0.08
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (57 bp):
CTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTAT
Found at i:4598419 original size:22 final size:23
Alignment explanation
Indices: 4598367--4598420 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
4598357 ATGGCCCTCT
*
4598367 GGTATCGATAC--CCCTATTTAT
1 GGTATCGATACTACCCTATTTAG
4598388 GGTATCGATACTACCCTA-TTAG
1 GGTATCGATACTACCCTATTTAG
*
4598410 GGTATTGATAC
1 GGTATCGATAC
4598421 CCCTTTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.38
22 13 0.45
23 5 0.17
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (23 bp):
GGTATCGATACTACCCTATTTAG
Found at i:4605586 original size:23 final size:21
Alignment explanation
Indices: 4605534--4605595 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
4605524 TTTTGGTGCA
*
4605534 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
4605554 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
4605575 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
4605596 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:4607913 original size:35 final size:35
Alignment explanation
Indices: 4607853--4607943 Score: 146
Period size: 35 Copynumber: 2.6 Consensus size: 35
4607843 AACAAAAAGG
***
4607853 GGGAGAAGTGTTAAATGTGTTTTTTAAATGATAAAT
1 GGGAGAAGTGTTAAA-GTAAGTTTTAAATGATAAAT
4607889 GGGAGAAGTGTTAAAGTAAGTTTTAAATGATAAAT
1 GGGAGAAGTGTTAAAGTAAGTTTTAAATGATAAAT
4607924 GGGAGAAGTGTTAAAGTAAG
1 GGGAGAAGTGTTAAAGTAAG
4607944 GGGGAGTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 37 0.71
36 15 0.29
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.32
Consensus pattern (35 bp):
GGGAGAAGTGTTAAAGTAAGTTTTAAATGATAAAT
Found at i:4614698 original size:12 final size:13
Alignment explanation
Indices: 4614667--4614691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4614657 TTTTTAAAAT
4614667 AAAATATTTTTTA
1 AAAATATTTTTTA
4614680 AAAATATTTTTT
1 AAAATATTTTTT
4614692 TAAATATGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAATATTTTTTA
Found at i:4621204 original size:29 final size:29
Alignment explanation
Indices: 4621170--4621233 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
4621160 TAGTTTAAGC
4621170 ATGTTTAGTATATTTTCATGGTAGATTTT
1 ATGTTTAGTATATTTTCATGGTAGATTTT
4621199 ATGTTTAGTATATTTTCATGGTAGATTTT
1 ATGTTTAGTATATTTTCATGGTAGATTTT
4621228 ATGTTT
1 ATGTTT
4621234 TATGGTTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.23, C:0.03, G:0.17, T:0.56
Consensus pattern (29 bp):
ATGTTTAGTATATTTTCATGGTAGATTTT
Found at i:4625095 original size:44 final size:43
Alignment explanation
Indices: 4625045--4625148 Score: 172
Period size: 44 Copynumber: 2.4 Consensus size: 43
4625035 TGGAGCATTT
* *
4625045 CAACTTATTCCCTAATACTATGTTGGAGCTATTACCATCTTTTC
1 CAACTTATTTCCTAAT-CTATGTTGGAGCTATTACCAGCTTTTC
4625089 CAACTTATTTCCTAAGTCTATGTTGGAGCTATTACCAGCTTTTC
1 CAACTTATTTCCTAA-TCTATGTTGGAGCTATTACCAGCTTTTC
4625133 CAACTTATTTCCTAAT
1 CAACTTATTTCCTAAT
4625149 TTTCTCTTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
43 1 0.02
44 55 0.96
45 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (43 bp):
CAACTTATTTCCTAATCTATGTTGGAGCTATTACCAGCTTTTC
Found at i:4631582 original size:23 final size:23
Alignment explanation
Indices: 4631552--4631609 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
4631542 AGGGAGAAGC
*
4631552 TTGATGTGTTGTCTTGTTAATCT
1 TTGATGTGTCGTCTTGTTAATCT
4631575 TTGATGTGTCGTCTTGTTAATCT
1 TTGATGTGTCGTCTTGTTAATCT
*
4631598 TTGATGTATCGT
1 TTGATGTGTCGT
4631610 AGCCGCCGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.14, C:0.10, G:0.22, T:0.53
Consensus pattern (23 bp):
TTGATGTGTCGTCTTGTTAATCT
Found at i:4632120 original size:4 final size:4
Alignment explanation
Indices: 4632105--4632138 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
4632095 TGCTTGATCG
4632105 AATA AA-A AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT
4632139 TAAAATATAA
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):
AATA
Found at i:4632148 original size:16 final size:16
Alignment explanation
Indices: 4632107--4632160 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
4632097 CTTGATCGAA
4632107 TAAAAAATAAATAAA-
1 TAAAAAATAAATAAAT
4632122 TAAATAAATAAATAAAT
1 TAAA-AAATAAATAAAT
* **
4632139 TAAAATATAAAGGAAT
1 TAAAAAATAAATAAAT
4632155 TAAAAA
1 TAAAAA
4632161 CAATGGGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 4 0.12
16 25 0.76
17 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (16 bp):
TAAAAAATAAATAAAT
Found at i:4639203 original size:158 final size:158
Alignment explanation
Indices: 4638915--4639231 Score: 634
Period size: 158 Copynumber: 2.0 Consensus size: 158
4638905 ATCAATGTTG
4638915 TGATTTGAAAAGCCATGGAATTGAAAGCATCAATATCCATTGCTACAATATTGCATCTGCTAAAC
1 TGATTTGAAAAGCCATGGAATTGAAAGCATCAATATCCATTGCTACAATATTGCATCTGCTAAAC
4638980 ATGATCGTTGTGTTAGGATATGGTATTCATTGCTGGAGATTCTCTCAAGGATGTCATATGTTTCA
66 ATGATCGTTGTGTTAGGATATGGTATTCATTGCTGGAGATTCTCTCAAGGATGTCATATGTTTCA
4639045 TTATAATACTTGTCCATCAATTCTCCAT
131 TTATAATACTTGTCCATCAATTCTCCAT
4639073 TGATTTGAAAAGCCATGGAATTGAAAGCATCAATATCCATTGCTACAATATTGCATCTGCTAAAC
1 TGATTTGAAAAGCCATGGAATTGAAAGCATCAATATCCATTGCTACAATATTGCATCTGCTAAAC
4639138 ATGATCGTTGTGTTAGGATATGGTATTCATTGCTGGAGATTCTCTCAAGGATGTCATATGTTTCA
66 ATGATCGTTGTGTTAGGATATGGTATTCATTGCTGGAGATTCTCTCAAGGATGTCATATGTTTCA
4639203 TTATAATACTTGTCCATCAATTCTCCAT
131 TTATAATACTTGTCCATCAATTCTCCAT
4639231 T
1 T
4639232 AGCAGAGGTA
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 159 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (158 bp):
TGATTTGAAAAGCCATGGAATTGAAAGCATCAATATCCATTGCTACAATATTGCATCTGCTAAAC
ATGATCGTTGTGTTAGGATATGGTATTCATTGCTGGAGATTCTCTCAAGGATGTCATATGTTTCA
TTATAATACTTGTCCATCAATTCTCCAT
Found at i:4660087 original size:22 final size:22
Alignment explanation
Indices: 4660012--4660089 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
4660002 TAATATATAT
4660012 ATATAATATATAGTTTTTTAAA
1 ATATAATATATAGTTTTTTAAA
*
4660034 ATAT-ATA-ATAAATTTTTTGAAA
1 ATATAATATAT-AGTTTTTT-AAA
* *
4660056 ACATACTATATAGTTTTTTAAA
1 ATATAATATATAGTTTTTTAAA
4660078 ATATAATATATA
1 ATATAATATATA
4660090 TTATATAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.04
21 10 0.22
22 23 0.50
23 9 0.20
24 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (22 bp):
ATATAATATATAGTTTTTTAAA
Found at i:4660094 original size:29 final size:28
Alignment explanation
Indices: 4660062--4660122 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
4660052 GAAAACATAC
* *
4660062 TATATAGTTTTTTAAAATATAATATATAT
1 TATATAGTTTTTAAAAATATAA-ATATAA
4660091 TATATAGTTTTTAAAAATATAAATATAA
1 TATATAGTTTTTAAAAATATAAATATAA
4660119 TATA
1 TATA
4660123 CATATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (28 bp):
TATATAGTTTTTAAAAATATAAATATAA
Found at i:4661347 original size:22 final size:21
Alignment explanation
Indices: 4661305--4661348 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4661295 CAAATTGGCA
* *
4661305 TTTTTAATTTTTATTTAATTT
1 TTTTTAAATTTAATTTAATTT
*
4661326 TTTTTAAATTTAATGTTCATTT
1 TTTTTAAATTTAAT-TTAATTT
4661348 T
1 T
4661349 ATATTTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTAAATTTAATTTAATTT
Found at i:4682183 original size:18 final size:18
Alignment explanation
Indices: 4682160--4682201 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4682150 GTTGACCCTA
*
4682160 GGAAAAGGGGCAAAAATT
1 GGAAAAGGGACAAAAATT
4682178 GGAAAAGGGACAAAAATT
1 GGAAAAGGGACAAAAATT
*
4682196 AGAAAA
1 GGAAAA
4682202 TGATTAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.29, T:0.10
Consensus pattern (18 bp):
GGAAAAGGGACAAAAATT
Found at i:4687210 original size:37 final size:37
Alignment explanation
Indices: 4687140--4687285 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
4687130 GGAAACAAGT
*
4687140 AATGCAAATCAAGCCTTCA-TAAAAGAGTAGTGAAGC
1 AATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAGC
4687176 AATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAGC
1 AATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAGC
4687213 AATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAGC
1 AATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAGC
*
4687250 AATGCAAATTC-AGCCTTCACAAAAATAGTAGTGAAG
1 AATGCAAA-TCAAGCCTTCACAAAAAGAGTAGTGAAG
4687286 AAATATCGGA
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
36 19 0.18
37 85 0.80
38 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (37 bp):
AATGCAAATCAAGCCTTCACAAAAAGAGTAGTGAAGC
Found at i:4687588 original size:24 final size:25
Alignment explanation
Indices: 4687554--4687604 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
4687544 ATAACTACAA
*
4687554 CCCGAAGGCCAATTACAAGCAAAAC
1 CCCGAAGGCCAATTACAACCAAAAC
* *
4687579 CCCGAA-GCCAGTTACAACCAAGAC
1 CCCGAAGGCCAATTACAACCAAAAC
4687603 CC
1 CC
4687605 AACAGATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.39, C:0.37, G:0.16, T:0.08
Consensus pattern (25 bp):
CCCGAAGGCCAATTACAACCAAAAC
Found at i:4691553 original size:2 final size:2
Alignment explanation
Indices: 4691546--4691688 Score: 247
Period size: 2 Copynumber: 72.5 Consensus size: 2
4691536 ACTAAAACAT
4691546 TA TA TA TA T- TA TA TA TA TA TA TA TGA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
*
4691588 TA TA TA TA TA T- TA TA TA TC 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
4691629 TA TA TA TA TA TA TA TA TA TA TA TA -A 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
4691670 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
4691689 GGTTTAGATT
Statistics
Matches: 135, Mismatches: 2, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
1 3 0.02
2 130 0.96
3 2 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4695293 original size:25 final size:25
Alignment explanation
Indices: 4695259--4695309 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4695249 ACCCTCAAAT
4695259 CCTGACTGTTGGTATCGATACCAAG
1 CCTGACTGTTGGTATCGATACCAAG
* *
4695284 CCTGATTGTTGGTATCGATATCAAG
1 CCTGACTGTTGGTATCGATACCAAG
4695309 C
1 C
4695310 ATATTGGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTGACTGTTGGTATCGATACCAAG
Found at i:4697654 original size:22 final size:22
Alignment explanation
Indices: 4697582--4697678 Score: 130
Period size: 20 Copynumber: 4.6 Consensus size: 22
4697572 AATTAAAGGG
* *
4697582 TAGTATCGATACTCCCATAC--
1 TAGTATCGATACTCCTATGCTA
4697602 TAGTATCGATACTCCTATGC--
1 TAGTATCGATACTCCTATGCTA
4697622 TAGTATCGATACTCCTATGCTA
1 TAGTATCGATACTCCTATGCTA
*
4697644 TAGTATGGATACTCCTATGCTA
1 TAGTATCGATACTCCTATGCTA
*
4697666 TAGTATCAATACT
1 TAGTATCGATACT
4697679 GACTAGGGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 38 0.54
22 32 0.46
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (22 bp):
TAGTATCGATACTCCTATGCTA
Found at i:4697659 original size:42 final size:40
Alignment explanation
Indices: 4697582--4697665 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 40
4697572 AATTAAAGGG
4697582 TAGTATCGATACTCCCATACTAGTATCGATACTCCTATGC
1 TAGTATCGATACTCCCATACTAGTATCGATACTCCTATGC
* * *
4697622 TAGTATCGATACTCCTATGCTATAGTATGGATACTCCTATGC
1 TAGTATCGATACTCCCATAC--TAGTATCGATACTCCTATGC
4697664 TA
1 TA
4697666 TAGTATCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 18 0.46
42 21 0.54
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (40 bp):
TAGTATCGATACTCCCATACTAGTATCGATACTCCTATGC
Found at i:4698851 original size:161 final size:161
Alignment explanation
Indices: 4698655--4698976 Score: 549
Period size: 162 Copynumber: 2.0 Consensus size: 161
4698645 TTAGCTTTAG
* *
4698655 CTCTTGGGCCACATAAGCCCAATACCCTCAAAAACTAGTCTAAACTAGTTTAGAAGATCTAAT-G
1 CTCTTGGGCCACATAAACCCAACACCCTCAAAAACTAGTCTAAACTAGTTTAGAAGATCTAATGG
*
4698719 GCTCGACTTATGAGTCTCGGGTTGATCCAAACTACTCACCC-AGAATTTGGGGTATTACATCATG
66 GCTCGACTTATGAGTCTCGGGTTGATCCAAACTACTCACCCGA-AATTCGGGGTATTACATCATG
*
4698783 TTTAAATCATTTTTTAATTTGTTTGAATTTATA
130 TTTAAATCATTTTTTAATAT-TTTGAATTTATA
* *
4698816 CTCTTGGGCCACATAAACCCAACACCCTCAAAAACTAGTCTAAATTGGTTTAGAAGATCTAATGG
1 CTCTTGGGCCACATAAACCCAACACCCTCAAAAACTAGTCTAAACTAGTTTAGAAGATCTAATGG
*
4698881 GCTCGACTTATGGGTCTCGGGTTGATCCAAACTACTCACCCGAAATTCGGGGTATTACATCATGT
66 GCTCGACTTATGAGTCTCGGGTTGATCCAAACTACTCACCCGAAATTCGGGGTATTACATCATGT
4698946 TTAAATCATTTTTTAATATTTTGAATTTATA
131 TTAAATCATTTTTTAATATTTTGAATTTATA
4698977 ACAAGAACAT
Statistics
Matches: 152, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
161 71 0.47
162 80 0.53
163 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (161 bp):
CTCTTGGGCCACATAAACCCAACACCCTCAAAAACTAGTCTAAACTAGTTTAGAAGATCTAATGG
GCTCGACTTATGAGTCTCGGGTTGATCCAAACTACTCACCCGAAATTCGGGGTATTACATCATGT
TTAAATCATTTTTTAATATTTTGAATTTATA
Found at i:4704669 original size:17 final size:17
Alignment explanation
Indices: 4704608--4704669 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
4704598 CTTGCAAAAA
*
4704608 AATAATA-AAAATAAA-
1 AATAATATAATATAAAT
*
4704623 ATTAA-ATAAT-TAAAT
1 AATAATATAATATAAAT
4704638 AATAATAATAA-ATAAAT
1 AATAAT-ATAATATAAAT
4704655 AATAATATAATATAA
1 AATAATATAATATAA
4704670 TATTTTTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 5 0.13
15 10 0.26
16 4 0.11
17 19 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAATATAATATAAAT
Found at i:4704948 original size:31 final size:30
Alignment explanation
Indices: 4704887--4704972 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 30
4704877 CTTTTAGGCT
*
4704887 TTACAAAATAGTCATTAAATTTATCTAACTA
1 TTACAAAATA-TCATTAAACTTATCTAACTA
4704918 TTACAAAATGATCATTAAACTTAT-TGAACTA
1 TTACAAAAT-ATCATTAAACTTATCT-AACTA
*
4704949 --ACAGAAATTATCCTTAAACTTATC
1 TTACA-AAA-TATCATTAAACTTATC
4704973 AAAATTTATC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
29 3 0.06
30 17 0.35
31 27 0.56
32 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (30 bp):
TTACAAAATATCATTAAACTTATCTAACTA
Found at i:4710449 original size:19 final size:18
Alignment explanation
Indices: 4710418--4710501 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 18
4710408 TCTTACTTAA
4710418 AGAAGAT-AGAAGAAGGG
1 AGAAGATGAGAAGAAGGG
*
4710435 AGAAAGATGAGAAGATA-GA
1 AG-AAGATGAGAAGA-AGGG
* *
4710454 AGAAG-GGAG-A-AAGATG
1 AGAAGATGAGAAGAAG-GG
4710470 AGAAGAT-AGAAGAAGGG
1 AGAAGATGAGAAGAAGGG
4710487 AGAAAGATGAGAAGA
1 AG-AAGATGAGAAGA
4710502 TAGGAAGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
14 1 0.02
15 1 0.02
16 8 0.16
17 9 0.18
18 16 0.31
19 15 0.29
20 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (18 bp):
AGAAGATGAGAAGAAGGG
Found at i:4710454 original size:26 final size:26
Alignment explanation
Indices: 4710418--4710509 Score: 175
Period size: 26 Copynumber: 3.5 Consensus size: 26
4710408 TCTTACTTAA
4710418 AGAAGATAGAAGAAGGGAGAAAGATG
1 AGAAGATAGAAGAAGGGAGAAAGATG
4710444 AGAAGATAGAAGAAGGGAGAAAGATG
1 AGAAGATAGAAGAAGGGAGAAAGATG
4710470 AGAAGATAGAAGAAGGGAGAAAGATG
1 AGAAGATAGAAGAAGGGAGAAAGATG
4710496 AGAAGATAGGAAGA
1 AGAAGATA-GAAGA
4710510 TAGGAAGAGT
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 60 0.92
27 5 0.08
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (26 bp):
AGAAGATAGAAGAAGGGAGAAAGATG
Found at i:4710928 original size:16 final size:17
Alignment explanation
Indices: 4710907--4710944 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4710897 TATGTTAGCA
* *
4710907 TCATACTA-ACATAAGT
1 TCATACTAGAAATAAAT
4710923 TCATACTAGAAATAAAT
1 TCATACTAGAAATAAAT
4710940 TCATA
1 TCATA
4710945 AAAATTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (17 bp):
TCATACTAGAAATAAAT
Found at i:4716223 original size:37 final size:36
Alignment explanation
Indices: 4716125--4716452 Score: 340
Period size: 37 Copynumber: 8.8 Consensus size: 36
4716115 TGCAAATGGT
*
4716125 TTTTG-AAATATGAATATAATATATAGTTTTTAAAACCT
1 TTTTGAAAATAT--ATATAATATATAGTTTTTAAAA-CA
* *
4716163 TTTTGAAAA-CTATATAATTTATAGTTTTTAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
4716198 TTTTAGAAAATATATATAATATATAGTTTTTAAAATCA
1 TTTT-GAAAATATATATAATATATAGTTTTTAAAA-CA
** * *
4716236 TTTTGAAAACGTATACAATATATAGTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
4716272 TTTTTGAAAACT-TATATAATATATAGTTTTAAAAACA
1 -TTTTGAAAA-TATATATAATATATAGTTTTTAAAACA
****
4716309 TTTTGAAAACATATATATAATATATAGTTTTTAATTTTT
1 TTTTG-AAA-ATATATATAATATATAGTTTTTAA-AACA
*
4716348 TTTTGAAAACATATATATAATATATAGTTTTTAAAAATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTT-AAAACA
* *
4716387 TTTTTAAAAAATATATAATATATAGTTTTTTGAAAAACA
1 TTTTGAAAATATATATAATATATAG-TTTTT--AAAACA
*
4716426 TTTT-TAAATATATATAATATATAGTTT
1 TTTTGAAAATATATATAATATATAGTTT
4716453 GAAAATGTTT
Statistics
Matches: 252, Mismatches: 25, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
35 5 0.02
36 33 0.13
37 103 0.41
38 59 0.23
39 50 0.20
40 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:4721038 original size:76 final size:76
Alignment explanation
Indices: 4720907--4721052 Score: 213
Period size: 76 Copynumber: 1.9 Consensus size: 76
4720897 ATATTATATA
* *
4720907 TATACAATAAAGCTTGAGTTATCCCTATAAAACAATTGGTTAAACGCCCCGGCTTTATGGATAAT
1 TATACAACAAAGCTTGAGTTATCCCTATAAAACAATTGGTTAAACGCCCCAGCTTTATGGATAAT
4720972 ATTCAGCTATC
66 ATTCAGCTATC
* * * * *
4720983 TATACAACAAAGCTTGAGTTGTCCCTCA-AGAGCAATTGGTTAAATGTCCCAGCTTTATGGATAA
1 TATACAACAAAGCTTGAGTTATCCCT-ATAAAACAATTGGTTAAACGCCCCAGCTTTATGGATAA
4721047 TATTCA
65 TATTCA
4721053 ACTAGCCTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
76 61 0.98
77 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (76 bp):
TATACAACAAAGCTTGAGTTATCCCTATAAAACAATTGGTTAAACGCCCCAGCTTTATGGATAAT
ATTCAGCTATC
Found at i:4723091 original size:86 final size:86
Alignment explanation
Indices: 4722460--4723092 Score: 795
Period size: 86 Copynumber: 7.4 Consensus size: 86
4722450 GAACTATTGG
* * * * * *
4722460 CAGCATAGCTCAAGGCAATAAGGGCTATCTATCAAC-CAAGACCTTCGAGTTCGATTACACTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
*
4722524 CTCAAAGGCATATCAAATTTG
66 CTCAAAGGCATATCAAATTTA
*** * **
4722545 CAGCATAACTCAAGGCGAGAATATTTATCTGCCAACAAAAGACAATCGAGTTCGATTACACTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
**
4722610 CTCAAAGGCATATCAAATTCC
66 CTCAAAGGCATATCAAATTTA
* *
4722631 CAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAA
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
* * **
4722696 CTTAAAGGTATATCAAATTCG
66 CTCAAAGGCATATCAAATTTA
* * * **
4722717 CAGCATAACTCAAGGTGAGAAAGGTTATCT-TCCAACAAAATACCTTATAGTTCGATTACACTCA
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGT-CAACAAAAGACCTTCGAGTTCGATTACACTCA
*
4722781 GCTCAAAGGCACATCAAATTTA
65 GCTCAAAGGCATATCAAATTTA
* * * *
4722803 CAACATAGCTCAAGCCAAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
* *
4722868 CTAAAAGGCATATCCAATTTA
66 CTCAAAGGCATATCAAATTTA
* * * * *
4722889 CAGCATAATTCAAGGCAATAAGGGTTATCTGTCAAC-CAAGACCTTCGATTTCGATTACACTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
* *
4722953 CTTAAAGGCACATCAAATTTA
66 CTCAAAGGCATATCAAATTTA
* * * *
4722974 CAGCATAGCTCAAGACGAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGATTACAGTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
* *
4723039 CTCAAAGGCACATAAAATTTA
66 CTCAAAGGCATATCAAATTTA
* * *
4723060 CAGCATAACACAAGGTGAGAAGGGCTATCTGTC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTC
4723093 TGCAAACTGT
Statistics
Matches: 471, Mismatches: 73, Indels: 7
0.85 0.13 0.01
Matches are distributed among these distances:
85 102 0.22
86 368 0.78
87 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (86 bp):
CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
CTCAAAGGCATATCAAATTTA
Found at i:4723829 original size:2 final size:2
Alignment explanation
Indices: 4723824--4723853 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4723814 ACACACACAC
4723824 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4723854 GTTTGCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4723966 original size:37 final size:37
Alignment explanation
Indices: 4723836--4723969 Score: 162
Period size: 36 Copynumber: 3.5 Consensus size: 37
4723826 ATATATATAT
** **
4723836 ATATATATATATATTATAGTTTGCAAATGATTTTTGAAA
1 ATATATATA-ATA-TATAGTTTTTAAAACATTTTTGAAA
*
4723875 ATACGAATATAATATATAGTTTTTAAAACATTTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAACATTTTTGAAA
* *
4723914 A-CTATATAATATATAGTTTTTAAAACATTTTAGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
4723950 ATATATATAATATATAGTTT
1 ATATATATAATATATAGTTT
4723970 GAAAATGTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
36 33 0.40
37 17 0.20
39 25 0.30
40 3 0.04
41 5 0.06
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
Found at i:4725085 original size:32 final size:34
Alignment explanation
Indices: 4725049--4725118 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 34
4725039 AATTGGTCCT
*
4725049 TTTTATTTTCAAGTTTT-TATTTAT-TTTTTAT-A
1 TTTTATTTTCAA-TTTTGTATATATGTTTTTATCA
*
4725081 TTTTATTTTTAATTTTGTATATATGTTTTTATCA
1 TTTTATTTTCAATTTTGTATATATGTTTTTATCA
4725115 TTTT
1 TTTT
4725119 TATGTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 4 0.12
32 17 0.52
33 7 0.21
34 5 0.15
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.71
Consensus pattern (34 bp):
TTTTATTTTCAATTTTGTATATATGTTTTTATCA
Found at i:4725119 original size:53 final size:53
Alignment explanation
Indices: 4725062--4725191 Score: 129
Period size: 53 Copynumber: 2.4 Consensus size: 53
4725052 TATTTTCAAG
* * * * * *
4725062 TTTTTATTTATTTTTTATATTTTATT-TTTAATTTTGTATATATGTTTTTATCA
1 TTTTTATTTATTTTTTATATTTTATTATTAAACTTTATATATATATATATAT-A
* *
4725115 TTTTTATGTATTTATTAT-TTATTATTATTAAACTTTATATATATATATATATA
1 TTTTTATTTATTTTTTATATT-TTATTATTAAACTTTATATATATATATATATA
* *
4725168 CTTTTATTTATTTATTTTTATTTT
1 TTTTTATTTATTT-TTTATATTTT
4725192 TTGGGGTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
52 2 0.03
53 33 0.54
54 24 0.39
55 2 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (53 bp):
TTTTTATTTATTTTTTATATTTTATTATTAAACTTTATATATATATATATATA
Found at i:4725128 original size:17 final size:18
Alignment explanation
Indices: 4725102--4725143 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
4725092 ATTTTGTATA
*
4725102 TATGTTTTTATCATTT-T
1 TATGTATTTATCATTTAT
*
4725119 TATGTATTTATTATTTAT
1 TATGTATTTATCATTTAT
4725137 TAT-TATT
1 TATGTATT
4725144 AAACTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (18 bp):
TATGTATTTATCATTTAT
Found at i:4725315 original size:20 final size:21
Alignment explanation
Indices: 4725273--4725330 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
4725263 ACATACATTT
* * *
4725273 TATTTTATTTTTATTATAATC
1 TATTTTATTTTTGTTCTCATC
*
4725294 ATTATTTTTTTTTTGTTCTCATC
1 --TATTTTATTTTTGTTCTCATC
4725317 TATTTTATTTTTGT
1 TATTTTATTTTTGT
4725331 CCATGTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 13 0.43
23 17 0.57
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (21 bp):
TATTTTATTTTTGTTCTCATC
Found at i:4725320 original size:21 final size:20
Alignment explanation
Indices: 4725292--4725330 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4725282 TTTATTATAA
*
4725292 TCATTATTTTTTTTTTGTTC
1 TCATTATTTTATTTTTGTTC
4725312 TCATCTATTTTATTTTTGT
1 TCAT-TATTTTATTTTTGT
4725331 CCATGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (20 bp):
TCATTATTTTATTTTTGTTC
Found at i:4725432 original size:19 final size:18
Alignment explanation
Indices: 4725380--4725435 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
4725370 TTTTTTCTCA
*
4725380 TTATTATAAATTTCTTTAT
1 TTATT-TAAATTTTTTTAT
* *
4725399 TTATTTTATTCTTTTTTAT
1 TTATTTAAAT-TTTTTTAT
4725418 TTATTTAACATTTTTTTA
1 TTATTTAA-ATTTTTTTA
4725436 CCTTTTAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.10
19 26 0.87
20 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTAAATTTTTTTAT
Found at i:4727276 original size:20 final size:20
Alignment explanation
Indices: 4727223--4727277 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 20
4727213 TTTTCATAAA
4727223 AATATTA-ATTATTAAAATAT
1 AATATTATATT-TTAAAATAT
*
4727243 ACTATTAATAATTTTAATAAT-T
1 AATATT-AT-ATTTTAA-AATAT
4727265 AATATTATATTTT
1 AATATTATATTTT
4727278 TAGTGTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 10 0.34
21 3 0.10
22 10 0.34
23 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTATATTTTAAAATAT
Found at i:4727313 original size:23 final size:23
Alignment explanation
Indices: 4727283--4727330 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
4727273 ATTTTTAGTG
4727283 TTGTAATAATATATTAAATTATA
1 TTGTAATAATATATTAAATTATA
*
4727306 TTGTAATAATATATTATATTATA
1 TTGTAATAATATATTAAATTATA
4727329 TT
1 TT
4727331 TTTAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTGTAATAATATATTAAATTATA
Found at i:4727359 original size:29 final size:28
Alignment explanation
Indices: 4727286--4727372 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 28
4727276 TTTAGTGTTG
4727286 TAATAATATATTAAATTATATTGTAATAATATA
1 TAATAATATATT---TT-TATT-TAATAATATA
* *
4727319 TTATATTATATTTTTAATTTAATAATATA
1 TAATAATATATTTTT-ATTTAATAATATA
*
4727348 TAATAA-ATTATTTTTATTTATTAAT
1 TAATAATA-TATTTTTATTTAATAAT
4727373 TTCGTAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 10 0.21
29 22 0.47
30 5 0.11
33 10 0.21
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (28 bp):
TAATAATATATTTTTATTTAATAATATA
Found at i:4727430 original size:23 final size:24
Alignment explanation
Indices: 4727388--4727437 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4727378 AAATTAATAT
*
4727388 TATTAAATTATTAAATATATTTAA
1 TATTAAATTATTAAATATATATAA
* *
4727412 TATTAATTTTTTAAA-ATATATAA
1 TATTAAATTATTAAATATATATAA
4727435 TAT
1 TAT
4727438 AATATTCTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTAAATTATTAAATATATATAA
Found at i:4727812 original size:24 final size:24
Alignment explanation
Indices: 4727785--4727852 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4727775 AAATAATATT
* *
4727785 AAATAAATTATTTTAA-TATTTTGA
1 AAATAAATAATATTAATTATTTT-A
4727809 AAAT-AATAATATTAATTATTTTA
1 AAATAAATAATATTAATTATTTTA
* *
4727832 TAATAAATAATATTATTTATT
1 AAATAAATAATATTAATTATT
4727853 ATACTTGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.34
24 25 0.66
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (24 bp):
AAATAAATAATATTAATTATTTTA
Found at i:4730892 original size:46 final size:46
Alignment explanation
Indices: 4730825--4730927 Score: 197
Period size: 46 Copynumber: 2.2 Consensus size: 46
4730815 ATGTTCAAAT
*
4730825 CATAATTTTTAGGCAGTTTTCCTTAATTAGCAACATTAACTCATTC
1 CATAATTTTTAGGCAATTTTCCTTAATTAGCAACATTAACTCATTC
4730871 CATAATTTTTAGGCAATTTTCCTTAATTAGCAACATTAACTCATTC
1 CATAATTTTTAGGCAATTTTCCTTAATTAGCAACATTAACTCATTC
4730917 CATAATTTTTA
1 CATAATTTTTA
4730928 TTAGCTTACC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (46 bp):
CATAATTTTTAGGCAATTTTCCTTAATTAGCAACATTAACTCATTC
Found at i:4734567 original size:24 final size:25
Alignment explanation
Indices: 4734535--4734598 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
4734525 CTCCATATAG
* ***
4734535 ATTTCTCCCAAAGGACCGTGTAG-A
1 ATTTGTCCCAAAGGACCACATAGAA
4734559 ATTTGTCCCAAAGGACCACATAGAA
1 ATTTGTCCCAAAGGACCACATAGAA
*
4734584 ATTTGTCCCGAAGGA
1 ATTTGTCCCAAAGGA
4734599 ATGCGTAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (25 bp):
ATTTGTCCCAAAGGACCACATAGAA
Found at i:4740434 original size:22 final size:21
Alignment explanation
Indices: 4740404--4740444 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4740394 CATCTCCATT
*
4740404 TCATCATCAACCCCATCAACA
1 TCATCATCAACACCATCAACA
*
4740425 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACACCATCAA
4740445 TTCCGTAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACACCATCAACA
Found at i:4743662 original size:24 final size:23
Alignment explanation
Indices: 4743618--4743671 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
4743608 ATAAATATGC
*
4743618 TTATT-TCATATGTTATAATATAA
1 TTATTATCATATATTATAATAT-A
4743641 TTATTATCATATA-TATATATATA
1 TTATTATCATATATTATA-ATATA
4743664 TATATTAT
1 T-TATTAT
4743672 ATCTATAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TTATTATCATATATTATAATATA
Found at i:4744969 original size:22 final size:21
Alignment explanation
Indices: 4744933--4744973 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4744923 CATCTCCATT
4744933 TCATCATCAACACCATCAACA
1 TCATCATCAACACCATCAACA
*
4744954 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACACCATCAA
4744974 TTCTGCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACACCATCAACA
Found at i:4752517 original size:15 final size:16
Alignment explanation
Indices: 4752496--4752540 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
4752486 AAGTATCTTT
4752496 TATTCACATAGAC-TA
1 TATTCACATAGACATA
*
4752511 TGA-TCACTTA-ACATA
1 T-ATTCACATAGACATA
4752526 TATTCACATAGACAT
1 TATTCACATAGACAT
4752541 TTTCAAGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
14 3 0.12
15 16 0.67
16 5 0.21
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (16 bp):
TATTCACATAGACATA
Found at i:4754717 original size:55 final size:55
Alignment explanation
Indices: 4754658--4755059 Score: 567
Period size: 55 Copynumber: 7.3 Consensus size: 55
4754648 TAATTTGTTT
* * *
4754658 ATGAATTTCCATATGGGAACTTTATGTGTAAACTTAATAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * * *
4754713 ATGAATTTTCTTATGGGCACTTTATGTGTAAACTTAAGAAATCCATACTTAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* *
4754768 ATGAATTTCCGTAAT-GGAACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGA
1 ATGAATTTCCGT-ATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * *
4754823 ATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATAATTAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
4754878 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAATAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
** *
4754933 ATGAATTTCCGTATGAACACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGA
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * *
4754988 ATGAATTTCCGTATGGGCACTTTATGTGCAAAAC-TATA-AAATTCATACTAGGTGT
1 ATGAATTTCCGTATGGGCACTTTATGTG-TAAACTTA-AGAAATTCATACTAAGTGG
* *
4755043 ATAAATTTTCGTATGGG
1 ATGAATTTCCGTATGGG
4755060 TAGTGGGTAT
Statistics
Matches: 311, Mismatches: 32, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
54 2 0.01
55 302 0.97
56 7 0.02
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (55 bp):
ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
Found at i:4754800 original size:110 final size:110
Alignment explanation
Indices: 4754605--4755059 Score: 603
Period size: 110 Copynumber: 4.1 Consensus size: 110
4754595 ATGTATGGTG
* * * * * * ** *
4754605 ATTTTCGTATGGGCACTTTGTGTGCAAAAAGTTAAAAAATTCATAATTTGTTTATGAATTTCCAT
1 ATTTTCGTATGGGCACTTTATGTG--TAAACTTAAGAAATTCATACTTAGTGGATGAATTTCCGT
4754670 ATGGGAACTTTATGTGTAAACTTAATAAATTCATACTAAGTGGATGA
64 ATGGGAACTTTATGTGTAAACTTAATAAATTCATACTAAGTGGATGA
* *
4754717 ATTTTCTTATGGGCACTTTATGTGTAAACTTAAGAAATCCATACTTAGTGGATGAATTTCCGTAA
1 ATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTTAGTGGATGAATTTCCGT-A
* *
4754782 T-GGAACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGAATGA
65 TGGGAACTTTATGTGTAAACTTAATAAATTCATACTAAGTGGATGA
*
4754827 A-TTTCTGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATAATTAGTGGATGAATTTCCGTA
1 ATTTTC-GTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTTAGTGGATGAATTTCCGTA
*
4754891 TGGGCACTTTATGTGTAAACTTAATAAATTCATACTAAGTGGATGA
65 TGGGAACTTTATGTGTAAACTTAATAAATTCATACTAAGTGGATGA
* ** * *
4754937 ATTTCCGTATGAACACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGAATGAATTTCCGTAT
1 ATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTTAGTGGATGAATTTCCGTAT
* * * * *
4755002 GGGCACTTTATGTGCAAAAC-T-ATAAAATTCATACTAGGTGTATAA
66 GGGAACTTTATGTG-TAAACTTAAT-AAATTCATACTAAGTGGATGA
4755047 ATTTTCGTATGGG
1 ATTTTCGTATGGG
4755060 TAGTGGGTAT
Statistics
Matches: 305, Mismatches: 32, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
109 8 0.03
110 266 0.87
111 9 0.03
112 22 0.07
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (110 bp):
ATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTTAGTGGATGAATTTCCGTAT
GGGAACTTTATGTGTAAACTTAATAAATTCATACTAAGTGGATGA
Found at i:4761832 original size:55 final size:55
Alignment explanation
Indices: 4761495--4761819 Score: 544
Period size: 55 Copynumber: 5.9 Consensus size: 55
4761485 TAATTTGTTT
* *
4761495 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAATAAATTCATACTAAGCGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * *
4761550 ATGAATTTCCGTATGGGAACTTTATGTGTAACCTTAAGAAATTCATACTTAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
4761605 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAAATCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
4761660 ATGAATTTCCGTATGAGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
4761715 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATAATAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* *
4761770 ATGAATTTCCGTATGGGCACTTTATGTGCAAAAC-TAGGAAATTCATACTA
1 ATGAATTTCCGTATGGGCACTTTATGTG-TAAACTTAAGAAATTCATACTA
4761820 GGTGTATAAA
Statistics
Matches: 253, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
55 249 0.98
56 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (55 bp):
ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
Found at i:4762606 original size:10 final size:10
Alignment explanation
Indices: 4762591--4762625 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
4762581 TTTAAAAGTC
4762591 CAATTTCAAT
1 CAATTTCAAT
4762601 CAATTTCAAT
1 CAATTTCAAT
4762611 CAATTTCAAT
1 CAATTTCAAT
4762621 CAATT
1 CAATT
4762626 CTCTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (10 bp):
CAATTTCAAT
Found at i:4773591 original size:20 final size:21
Alignment explanation
Indices: 4773562--4773611 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
4773552 TATCACTAGG
*
4773562 GTATCGATACCTTGAGAGG-A
1 GTATCGATACCTTAAGAGGCA
*
4773582 GTATCAATA-CTTAAGAGGCA
1 GTATCGATACCTTAAGAGGCA
4773602 GTATCGATAC
1 GTATCGATAC
4773612 TGAGGGGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (21 bp):
GTATCGATACCTTAAGAGGCA
Found at i:4779927 original size:20 final size:20
Alignment explanation
Indices: 4779904--4779943 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4779894 CTCTCTCATA
*
4779904 GGTATTGATACTCATGGTTC
1 GGTATCGATACTCATGGTTC
4779924 GGTATCGATACTCATGGTTC
1 GGTATCGATACTCATGGTTC
4779944 AATCTCGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (20 bp):
GGTATCGATACTCATGGTTC
Found at i:4779951 original size:20 final size:20
Alignment explanation
Indices: 4779910--4779955 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4779900 CATAGGTATT
**
4779910 GATACTCATGGTTCGGTATC
1 GATACTCATGGTTCAATATC
*
4779930 GATACTCATGGTTCAATCTC
1 GATACTCATGGTTCAATATC
4779950 GATACT
1 GATACT
4779956 TAAAGGGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (20 bp):
GATACTCATGGTTCAATATC
Found at i:4787972 original size:39 final size:39
Alignment explanation
Indices: 4787929--4788012 Score: 168
Period size: 39 Copynumber: 2.2 Consensus size: 39
4787919 TCCCTCACTA
4787929 AATTAAAAAATATAGTATTTAGTCCTTTCGTTTTTATTT
1 AATTAAAAAATATAGTATTTAGTCCTTTCGTTTTTATTT
4787968 AATTAAAAAATATAGTATTTAGTCCTTTCGTTTTTATTT
1 AATTAAAAAATATAGTATTTAGTCCTTTCGTTTTTATTT
4788007 AATTAA
1 AATTAA
4788013 GATGTGGTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (39 bp):
AATTAAAAAATATAGTATTTAGTCCTTTCGTTTTTATTT
Found at i:4797608 original size:23 final size:23
Alignment explanation
Indices: 4797561--4797608 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
4797551 CGTGTTTGAG
* * **
4797561 ATACACCATCATCACCATCTTCC
1 ATACAACATCAACACCATCAACC
4797584 ATACAACATCAACACCATCAACC
1 ATACAACATCAACACCATCAACC
4797607 AT
1 AT
4797609 CTTCCATCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (23 bp):
ATACAACATCAACACCATCAACC
Found at i:4797616 original size:23 final size:22
Alignment explanation
Indices: 4797590--4797634 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
4797580 TTCCATACAA
*
4797590 CATCAACACCATCAACCATCTTC
1 CATCAACACCACCAA-CATCTTC
*
4797613 CATCAAGACCACCAACATCTTC
1 CATCAACACCACCAACATCTTC
4797635 ATTTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.36, C:0.42, G:0.02, T:0.20
Consensus pattern (22 bp):
CATCAACACCACCAACATCTTC
Found at i:4803334 original size:3 final size:3
Alignment explanation
Indices: 4803326--4803452 Score: 157
Period size: 3 Copynumber: 42.0 Consensus size: 3
4803316 TTTTATCAGG
4803326 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
4803374 ATC ATA ATT ATT ATT ATT ATT ATT ATC ATA ATT ATT ATT AATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
* * * *
4803419 ATTT ATT TTT ATT TTT ATT ATT AAT ATT AGT ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4803453 TTGTAATGTT
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.02
3 100 0.93
4 5 0.05
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4803602 original size:16 final size:16
Alignment explanation
Indices: 4803581--4803613 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4803571 AAAATTAGGG
4803581 TTTCTAAACCCTAAAC
1 TTTCTAAACCCTAAAC
4803597 TTTCTAAACCCTAAAC
1 TTTCTAAACCCTAAAC
4803613 T
1 T
4803614 AAAGACAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (16 bp):
TTTCTAAACCCTAAAC
Found at i:4805262 original size:795 final size:774
Alignment explanation
Indices: 4803752--4805315 Score: 2657
Period size: 795 Copynumber: 2.0 Consensus size: 774
4803742 TGAAAATTGT
4803752 ACCAAATCGGCCAACAGATTACAAACAACTCCACTAAGCCTTTAAAATAATCAAACCTAAAACCT
1 ACCAAATCGGCCAACAGATTACAAACAACTCCACTAAGCCTTTAAAATAATCAAACCTAAAACCT
*
4803817 AATTCCCCACTGAGTTGAATCAAGCAACTATAAAAACGAAATGAAGGGGGAGCGAAGGAGAGGGG
66 AATTCCCCACTGAGCTGAATCAAGCAACTATAAAAACGAAATGAAGGGGGAGCGAAGGAGAGGGG
* *
4803882 AACAAAGAGAAAGGAAAAACAAGAAGAAAAGGGAGACGACTTACAGTGGAGATTCAAAGCCATTG
131 AACAAAGAGAAAGGAAAAACAAG-ACAAAAGGGACACGACTTACAGTGGAGATTCAAAGCCATTG
* *
4803947 GGAAGCTTTAAAGCTGGCCGTGAAAGCTTGAAAGTTGTCATGTTCTTCACTTCTTTCGAAGGTAA
195 AGAAGCTTTAAAGCTGGCCGTGAAAGCTTGAAAGTTGTCATGTTCTTCACTTCTTTCGAAGGCAA
* *
4804012 TAATCCAGATCTACGGGTTTTGGGTTATTTGTAGGTTAAAATAAGGTGTTTTTTAGGTAGATGAT
260 TAATCCAGATCTACGGGTTTTGGGTTATTTGTAGGCTAAAATAAGGTGTTTTTTAGGTAGAGGAT
*
4804077 AAAATAAGGAAGGTTTTGGTGATTTTCGGTTTGCTCCGACCACCGGACGCCGCCATGTACCGCCG
325 AAAATAAGGAAGGTTTTAGTGATTTTCGGTTTGCTCCGACCACCGGACGCCGCCATGTACCGCCG
*
4804142 TGGATTCCACCGGCGAACGGCGATCTTCTCTCCGATTATAAGAGAATTGAGCTCCCTCTGTTTTA
390 TAGATTCCACCGGCGAACGGCGATCTTCTCTCCGATTATAAGAGAATTGAGCTCCCTCTGTTTTA
* *
4804207 TGTAAATGAAACAAATGAGAAAGATGTGAGAAAAAGCCTTAATGTTAGGCTTATATACATCTAAT
455 TGTAAATGAAACAAATAAGAAAGATGTGAGAAAAAGCCTTAATGTTAGGATTATATACATCTAAT
* *
4804272 AAAACGATGTAGTTTAACCAAAGGAAGTAATCTGTAATTTCACTCATGGAACATTCGCAAATGGT
520 AAAACGATGTAGTTTAACCAAAAGAAGTAATCTGTAATTTCACTCATGGAACATTCGCAAATGGG
*
4804337 GTTACTGTTAGTTTGTAATTTTCTATTATGGTCATTAGTATAACTTTAATTTTATTTTAATTTGA
585 GTCACTGTTAGTTTGTAATTTTCTATTATGGTCATTAGTATAACTTTAATTTTATTTTAATTTGA
*
4804402 GTTACTATTTTAATTTATGTTACGTTTTAATCCCATTTTATATGTTATATAATTCCTGTTAATAT
650 ATTACTATTTTAATTTATGTTACGTTTTAATCCCATTTTATATGTTATATAATTCCTGTTAATAT
4804467 TCGATTTTGGGCTTTTATTTTTCAATTTTCGAATTTAAGTCACCATTTATATGTAGTTTA
715 TCGATTTTGGGCTTTTATTTTTCAATTTTCGAATTTAAGTCACCATTTATATGTAGTTTA
*
4804527 ACCAAATCGGCCAACAGCTTACAAACAACTCCACTAAGCCTTTAAAATAATCAAACCTAAAACCT
1 ACCAAATCGGCCAACAGATTACAAACAACTCCACTAAGCCTTTAAAATAATCAAACCTAAAACCT
4804592 AATTCCCCACTGAGCTGAATCAAGCAACTATAAAAACGATAA-GAAGGGGGAGCGAAGGAGAGGG
66 AATTCCCCACTGAGCTGAATCAAGCAACTATAAAAACGA-AATGAAGGGGGAGCGAAGGAGAGGG
*
4804656 GAACAAAGAGAAAGGAAAAACAAG-CAAAAGGGACAGGACTTACAGTGGAGATTCAAAGCCATTG
130 GAACAAAGAGAAAGGAAAAACAAGACAAAAGGGACACGACTTACAGTGGAGATTCAAAGCCATTG
* **
4804720 AGAAGCTTTAAAGCTGGCCGTGGAAGCTTGAAAGTTGTTGTGTTCTTCACTTCTTTCGAAGGCAA
195 AGAAGCTTTAAAGCTGGCCGTGAAAGCTTGAAAGTTGTCATGTTCTTCACTTCTTTCGAAGGCAA
*
4804785 TAATCCAGATCTACGGGTTTTGGGTTATTTGTAGGCTAAAATAAGGTGTTTTTTTGGGTAGAGGA
260 TAATCCAGATCTACGGGTTTTGGGTTATTTGTAGGCTAAAATAAGGTG-TTTTTTAGGTAGAGGA
4804850 TAAAATAAGGAAGGTTTTAGTGATTTTCGGTTTGCTCCGACCACCGGACGCCGCCATGTACCGCC
324 TAAAATAAGGAAGGTTTTAGTGATTTTCGGTTTGCTCCGACCACCGGACGCCGCCATGTACCGCC
* *
4804915 GTAGATTCCACCGGCGAACGGCG-GCTTTCTCTCCGGTTATAAGAGAATTGAGAGAGTCCGATGA
389 GTAGATTCCACCGGCGAACGGCGATC-TTCTCTCCGATTATAAGAGAA-T-------T--GA-G-
*
4804979 CTCTCTCTCTCCCTTCTGTTTTATGTAAATGAGACAAATAAGAAAGATGTGAGAAAAAGCCTTAA
441 --------CTCCC-TCTGTTTTATGTAAATGAAACAAATAAGAAAGATGTGAGAAAAAGCCTTAA
4805044 TGTTAGGATTATATACATCTAATAAAACGATGTAGTTTAACCAAAAGAAGTAATCTGTAATTTCA
497 TGTTAGGATTATATACATCTAATAAAACGATGTAGTTTAACCAAAAGAAGTAATCTGTAATTTCA
*
4805109 CTGATGGAACATTCGCAAATGGGGTCACTGTTAGTTTGTAATTTTCTATTATGGTCATTAGTATA
562 CTCATGGAACATTCGCAAATGGGGTCACTGTTAGTTTGTAATTTTCTATTATGGTCATTAGTATA
4805174 ACTTTAATTTTATTTTAATTTGAATTACTATTTTAATTTATGTTACGTTTTAATCCCATTTTATA
627 ACTTTAATTTTATTTTAATTTGAATTACTATTTTAATTTATGTTACGTTTTAATCCCATTTTATA
4805239 TGTTATATAATTCCTGTTAATATTCGATTTTGGGCTTTTATTTTTCAATTTTCGAATTTAAGTCA
692 TGTTATATAATTCCTGTTAATATTCGATTTTGGGCTTTTATTTTTCAATTTTCGAATTTAAGTCA
4805304 CCATTTATATGT
757 CCATTTATATGT
4805316 TTTAATATGT
Statistics
Matches: 740, Mismatches: 25, Indels: 28
0.93 0.03 0.04
Matches are distributed among these distances:
773 145 0.20
774 120 0.16
775 149 0.20
776 2 0.00
782 1 0.00
784 2 0.00
785 1 0.00
794 5 0.01
795 315 0.43
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (774 bp):
ACCAAATCGGCCAACAGATTACAAACAACTCCACTAAGCCTTTAAAATAATCAAACCTAAAACCT
AATTCCCCACTGAGCTGAATCAAGCAACTATAAAAACGAAATGAAGGGGGAGCGAAGGAGAGGGG
AACAAAGAGAAAGGAAAAACAAGACAAAAGGGACACGACTTACAGTGGAGATTCAAAGCCATTGA
GAAGCTTTAAAGCTGGCCGTGAAAGCTTGAAAGTTGTCATGTTCTTCACTTCTTTCGAAGGCAAT
AATCCAGATCTACGGGTTTTGGGTTATTTGTAGGCTAAAATAAGGTGTTTTTTAGGTAGAGGATA
AAATAAGGAAGGTTTTAGTGATTTTCGGTTTGCTCCGACCACCGGACGCCGCCATGTACCGCCGT
AGATTCCACCGGCGAACGGCGATCTTCTCTCCGATTATAAGAGAATTGAGCTCCCTCTGTTTTAT
GTAAATGAAACAAATAAGAAAGATGTGAGAAAAAGCCTTAATGTTAGGATTATATACATCTAATA
AAACGATGTAGTTTAACCAAAAGAAGTAATCTGTAATTTCACTCATGGAACATTCGCAAATGGGG
TCACTGTTAGTTTGTAATTTTCTATTATGGTCATTAGTATAACTTTAATTTTATTTTAATTTGAA
TTACTATTTTAATTTATGTTACGTTTTAATCCCATTTTATATGTTATATAATTCCTGTTAATATT
CGATTTTGGGCTTTTATTTTTCAATTTTCGAATTTAAGTCACCATTTATATGTAGTTTA
Found at i:4807889 original size:27 final size:28
Alignment explanation
Indices: 4807837--4807889 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
4807827 ACATGTACTA
*
4807837 ACTAATTTCTTTTGTTTTGTTTGTGTAC
1 ACTAACTTCTTTTGTTTTGTTTGTGTAC
4807865 ACTAACTTCTTTT-TTTTGTTTGTGT
1 ACTAACTTCTTTTGTTTTGTTTGTGT
4807890 CATTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.13, C:0.11, G:0.13, T:0.62
Consensus pattern (28 bp):
ACTAACTTCTTTTGTTTTGTTTGTGTAC
Found at i:4812330 original size:76 final size:75
Alignment explanation
Indices: 4812100--4812441 Score: 275
Period size: 75 Copynumber: 4.5 Consensus size: 75
4812090 TCACTGAAGT
* * * * * *
4812100 TTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGCTTTACTTGAAAGAAGACATTTCAT
1 TTGTTTTTCTTAAAACA-AGATTTGTCTCGCTTGAGACCGTTTTACTTAAAACAAGACATTTCAT
*
4812164 TTGACTGA-AGA
65 TTCACT-ACAGA
* * * * * *
4812175 ATGCTTTTCTTAAAACAA-ACTTTATCTCACTTGAGACCGTTTTACTTGAAAGAAGACATTTCAT
1 TTGTTTTTCTTAAAACAAGA-TTTGTCTCGCTTGAGACCGTTTTACTTAAAACAAGACATTTCAT
* **
4812239 TTGACTGGAGA
65 TTCACTACAGA
* *
4812250 TTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGGGACAGGTTTTA-TTCAAAACAAGACATTTCA
1 TTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC-CGTTTTACTT-AAAACAAGACATTTCA
4812314 TTTCACTACATG-
64 TTTCACTACA-GA
* ** ** * *
4812326 TTGTTTTTCTTAAAACAAGATTTGTCTCGCTAGAGACATTTTTTACTCGAAATAAGAAGATTT-A
1 TTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC-CGTTTTACTTAAAACAAG-ACATTTCA
4812390 TTTCACT-CAAGA
64 TTTCACTAC-AGA
* *
4812402 TTGTTTTTCCTTGAAACAGAAGATTTTATCTCGCTTGAGA
1 TTGTTTTT-CTT-AAA-ACAAGA-TTTGTCTCGCTTGAGA
4812442 TAGTTTCTAT
Statistics
Matches: 224, Mismatches: 29, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
74 1 0.00
75 99 0.44
76 92 0.41
77 10 0.04
78 3 0.01
79 5 0.02
80 14 0.06
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (75 bp):
TTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTACTTAAAACAAGACATTTCATT
TCACTACAGA
Found at i:4812455 original size:39 final size:39
Alignment explanation
Indices: 4812410--4812968 Score: 868
Period size: 39 Copynumber: 14.3 Consensus size: 39
4812400 GATTGTTTTT
4812410 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
** *
4812449 TATTGAAACAGAAGATTTTATCTCGCTTTAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
4812488 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
**
4812527 TATTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
**
4812566 TATTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
* *
4812605 CCTCGAAACAGAAGATTTTATCTCGCTTAAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
4812644 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
* *
4812683 CCTTGAAACAGAAGATTTTGTCTAGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
* * *
4812722 CCTTGAAAAATAAGATTTTGTCTCGCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
* * *
4812761 CTTTGAAACAGAAGATTTTGTCTCGCTTGAGATAGTCTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
*
4812800 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTCTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
* *
4812839 CCTTGAAACAGAAGATTTTCTCTCTCTTGAGATAGTTTC
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
* * *
4812878 CCTCGAAACAGAAGATTTTGTCTCTCTTGAGATAGTTT-
1 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
* *
4812916 CCTTCGAAACAGAAGATTTTATCTCACTTGAAATAGTTTC
1 CCTT-GAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
*
4812956 CCTCGAAACAGAA
1 CCTTGAAACAGAA
4812969 TAAGCCTCGC
Statistics
Matches: 483, Mismatches: 35, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
38 3 0.01
39 477 0.99
40 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (39 bp):
CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
Found at i:4813436 original size:3 final size:3
Alignment explanation
Indices: 4813428--4813492 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
4813418 TTTTATCAGG
* *
4813428 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATA ATT ATT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
*
4813474 A-T ATTT ATT TTT ATT ATT A
1 ATT A-TT ATT ATT ATT ATT A
4813493 ATAATAATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
2 2 0.04
3 47 0.87
4 5 0.09
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4819045 original size:20 final size:20
Alignment explanation
Indices: 4819009--4819046 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4818999 ATCCTATTCC
**
4819009 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
4819029 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
4819047 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:4819169 original size:2 final size:2
Alignment explanation
Indices: 4819141--4819257 Score: 101
Period size: 2 Copynumber: 63.5 Consensus size: 2
4819131 AAATAATAAT
*
4819141 TA TA -A TA TA AA TA T- TA TA TA T- TA -A 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
*
4819179 T- TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
4819218 TC TA TA TA -A TA AA T- TA TA TA AA TA TA -A TA TT TT 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
4819257 T
1 T
4819258 GCTTTATAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
1 10 0.11
2 84 0.89
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4819242 original size:18 final size:18
Alignment explanation
Indices: 4819136--4819257 Score: 112
Period size: 18 Copynumber: 7.0 Consensus size: 18
4819126 ATCTAAAATA
* *
4819136 ATAAT-TATAATATAAAT
1 ATAATATATTATATATAT
*
4819153 ATTATATATTA-ATATAT
1 ATAATATATTATATATAT
4819170 ATATATATATTA-ATATAT
1 ATA-ATATATTATATATAT
4819188 AT-ATATA-TATATATAT
1 ATAATATATTATATATAT
* *
4819204 ATATATATATTATTTCTAT
1 ATA-ATATATTATATATAT
* *
4819223 ATAATAAATTATATAAAT
1 ATAATATATTATATATAT
*
4819241 ATAATAT-TTTTATATAT
1 ATAATATATTATATATAT
4819258 GCTTTATAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
15 2 0.02
16 13 0.15
17 19 0.22
18 42 0.49
19 10 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATATATTATATATAT
Found at i:4820700 original size:5 final size:5
Alignment explanation
Indices: 4820690--4820721 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
4820680 GCACTAGTTA
4820690 TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TG
1 TGAAG TGAAG TGAAG TGAAG TGAAG TGAAG TG
4820722 TAGGCTGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.22
Consensus pattern (5 bp):
TGAAG
Found at i:4824152 original size:2 final size:2
Alignment explanation
Indices: 4824145--4824217 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
4824135 TCATACATAC
4824145 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4824186 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4824218 GGAAAACATA
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 69 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4825840 original size:3 final size:3
Alignment explanation
Indices: 4825832--4825878 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
4825822 ATGTAAATTA
4825832 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- ATAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
4825877 AA
1 AA
4825879 AAAAGACCCG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4826364 original size:28 final size:28
Alignment explanation
Indices: 4826309--4826415 Score: 153
Period size: 28 Copynumber: 3.7 Consensus size: 28
4826299 GAGACCGACT
4826309 CAAAGATTTGTTTCAAAAAGAAACAAACC
1 CAAAGATTTGTTTC-AAAAGAAACAAACC
4826338 CAAAGATTTGTTTCAAAAGAAACAAACC
1 CAAAGATTTGTTTCAAAAGAAACAAACC
*
4826366 CAAAGATTTGTTTCAAGAA-AAACAAACT
1 CAAAGATTTGTTTCAA-AAGAAACAAACC
4826394 CAAAGATAATGTGTTTCAAAAG
1 CAAAGAT--T-TGTTTCAAAAG
4826416 CAACTGTCTC
Statistics
Matches: 72, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
28 45 0.62
29 16 0.22
30 3 0.04
31 8 0.11
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (28 bp):
CAAAGATTTGTTTCAAAAGAAACAAACC
Found at i:4826695 original size:64 final size:62
Alignment explanation
Indices: 4826571--4826708 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 62
4826561 CAATGATGGT
*
4826571 AAATTTTGTTTTCCAAAGAAACAAACTCAAAGATTTTTCTCAAAGAAACTGTCTCGAGAGAAACA
1 AAATTTTG-TTTCCAAAGAAACAAACTCAAAGATTTTTCTCAAAGAAACTGTCTC-A-AGAGACA
* * * * * * * *
4826636 AAATTTTGTTTCCAAAGAAAGAGATTCAATGATTTTTTTTAAAGACATTGTCAT-AAGAGACA
1 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTCAAAGAAACTGTC-TCAAGAGACA
*
4826698 AAACTTTGTTT
1 AAATTTTGTTT
4826709 TTCAGAAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
62 16 0.26
63 1 0.02
64 36 0.58
65 9 0.15
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (62 bp):
AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTCAAAGAAACTGTCTCAAGAGACA
Found at i:4827013 original size:66 final size:64
Alignment explanation
Indices: 4826730--4827088 Score: 179
Period size: 66 Copynumber: 5.5 Consensus size: 64
4826720 GTATCTTAGT
* *
4826730 GAGACAAAATTTTGTTTCCAAAGAAACAGACTC--AGAT-T-TTTCTTCAAAAGAAACTGT-TTT
1 GAGACAAAATTTTGTTT-CAAAGAAAC-GACTCAAAGATGTATTTC-TCAAAAGAAATTGTCTTC
4826790 AA
63 AA
* * ** * * * * * * *
4826792 GGGATAAAACCTTGTTTCCAGAGAAACAAACTCAAAGATGATCTTGTTTTAAGAGAAAATGT-TT
1 GAGACAAAATTTTGTTT-CAAAGAAAC-GACTCAAAGATG-TATT-TCTCAAAAGAAATTGTCTT
4826856 CAA
62 CAA
* * * * * *
4826859 GAGACAAAA-TTCGTTTGAAGGGAAACGACTCAAAGATGTCA--T-TGAAAGGAAACTGTC-TCA
1 GAGACAAAATTTTGTTTCAA-AGAAACGACTCAAAGATGT-ATTTCTCAAAAGAAATTGTCTTCA
*
4826919 TGC
64 --A
* * *
4826922 GAGACAAAA-TTTGTTTTAATAGAAACGATCTCAAAGGTGGGTATTT-TCAAAAGAAGTTGTC-T
1 GAGACAAAATTTTGTTTCAA-AGAAACGA-CTCAAAGAT--GTATTTCTCAAAAGAAATTGTCTT
*
4826984 CGA
62 CAA
* * * * *
4826987 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCTCATAAGAAATTGTCTTTA
1 GAGACAAAATTTTGTTTCAAA-GAAAC-GACTCAAAGATGTATTTCTCAAAAGAAATTGTCTTCA
4827052 A
64 A
*
4827053 GAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAA
1 GAGACAAAATTTTGTTTC-AAAGAAAC-GACTCAAA
4827089 AATGGATCAC
Statistics
Matches: 228, Mismatches: 47, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
61 13 0.06
62 28 0.12
63 24 0.11
64 17 0.07
65 36 0.16
66 67 0.29
67 42 0.18
68 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (64 bp):
GAGACAAAATTTTGTTTCAAAGAAACGACTCAAAGATGTATTTCTCAAAAGAAATTGTCTTCAA
Found at i:4827331 original size:64 final size:64
Alignment explanation
Indices: 4827252--4827421 Score: 164
Period size: 64 Copynumber: 2.6 Consensus size: 64
4827242 TTTCAAAATG
* * * *
4827252 AACATATTCAAAGATTTACTTCAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT-AAGAG
1 AACAGATTCAAAGATTTACTTCAAAAGAAACTATCTCAAGAGAGACAAAATT-ATGTTTCAA-AG
4827315 A
64 A
** * * *
4827316 AACAGATTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGA
1 AACAGATTCAAAGATTTACTTCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTT-CAAAGA
* ** *
4827381 AACAGACTCAAAGATTTTTGTTTCAAAAGAAACAATCTCAA
1 AACAGATTCAAAGA--TTTACTTCAAAAGAAACTATCTCAA
4827422 AGATTTTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
63 1 0.01
64 47 0.54
65 16 0.18
66 2 0.02
67 21 0.24
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (64 bp):
AACAGATTCAAAGATTTACTTCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTTCAAAGA
Found at i:4827400 original size:30 final size:30
Alignment explanation
Indices: 4827366--4827438 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 30
4827356 AGAGACAAAA
4827366 TTTTGTTTCCAAAGAAACAGA-CTCAAAGAT
1 TTTTGTTTCCAAAGAAACA-ATCTCAAAGAT
*
4827396 TTTTGTTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCCAAAGAAACAATCTCAAAGAT
4827426 TTTT-TTTCACAAA
1 TTTTGTTTC-CAAA
4827439 ATCGTCTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 5 0.13
30 34 0.87
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.36
Consensus pattern (30 bp):
TTTTGTTTCCAAAGAAACAATCTCAAAGAT
Found at i:4827598 original size:29 final size:29
Alignment explanation
Indices: 4827518--4827664 Score: 219
Period size: 29 Copynumber: 5.2 Consensus size: 29
4827508 AAAACTTTGT
* * *
4827518 TTCAAAAGAAATAGACTCAAAGA-TTTT-
1 TTCAAAAGGAACAAACTCAAAGATTTTTA
*
4827545 TTCAAAAGAAAC-AACTCAAAGATTTTTA
1 TTCAAAAGGAACAAACTCAAAGATTTTTA
4827573 TTCAAAAGGAACAAACTCAAAGATTTTTA
1 TTCAAAAGGAACAAACTCAAAGATTTTTA
*
4827602 TTCAAAATGAACAAACTCAAAGATTTTTA
1 TTCAAAAGGAACAAACTCAAAGATTTTTA
*
4827631 TTCAAAAGGAACAAACTCAAAGATTTTTT
1 TTCAAAAGGAACAAACTCAAAGATTTTTA
4827660 TTCAA
1 TTCAA
4827665 GAAATTGTCT
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
26 9 0.08
27 15 0.14
28 11 0.10
29 76 0.68
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (29 bp):
TTCAAAAGGAACAAACTCAAAGATTTTTA
Found at i:4828053 original size:36 final size:35
Alignment explanation
Indices: 4827969--4828072 Score: 129
Period size: 36 Copynumber: 3.0 Consensus size: 35
4827959 GAGAAAATGA
* * *
4827969 TGTCTCAAGCGAGACAAAATTTG-CTTTAAGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTGAGAAAT
* **
4828003 AGTCTCAAATGAGACAAAATTTGTTTTTCGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTT-GAGAAAT
*
4828039 TGTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTGAGAAA
4828073 ACGATCTCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 20 0.34
35 9 0.16
36 29 0.50
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTGAGAAAT
Found at i:4828081 original size:36 final size:34
Alignment explanation
Indices: 4827970--4828088 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 34
4827960 AGAAAATGAT
* * *
4827970 GTCTCAAGCGAGACAAAATTTG-CTTTAAGATATA
1 GTCTCAAGCGAGACAAAATTTGTTTTTGAGA-AAA
** *
4828004 GTCTCAAATGAGACAAAATTTGTTTTTCGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTT-GAGAAA-A
*
4828040 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAA
1 GTCTCAAGCGAGACAAAATTTGTTTTTGAGAAAA
*
4828074 CGATCTCAAGTGAGA
1 -G-TCTCAAGCGAGA
4828089 TCAACTTTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
34 20 0.29
35 11 0.16
36 38 0.55
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (34 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTGAGAAAA
Found at i:4828219 original size:105 final size:101
Alignment explanation
Indices: 4828040--4828272 Score: 292
Period size: 105 Copynumber: 2.3 Consensus size: 101
4828030 TCGAGAAATT
*
4828040 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
4828104 GTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
64 GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
4828142 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
4828206 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
4828247 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
4828273 AAAATTCTCA
Statistics
Matches: 115, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 4 0.03
105 78 0.68
106 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:4829971 original size:13 final size:12
Alignment explanation
Indices: 4829939--4829972 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
4829929 TTTCTTCGCC
4829939 TTTTCTTTGATT
1 TTTTCTTTGATT
*
4829951 TTTGCTTTGATTT
1 TTTTCTTTGA-TT
4829964 TTTTCTTTG
1 TTTTCTTTG
4829973 CTCTTTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.06, C:0.09, G:0.12, T:0.74
Consensus pattern (12 bp):
TTTTCTTTGATT
Found at i:4829984 original size:20 final size:20
Alignment explanation
Indices: 4829955--4830004 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
4829945 TTGATTTTTG
*
4829955 CTTTGATTTTTTTCTTTGCT
1 CTTTGTTTTTTTTCTTTGCT
*
4829975 CTTTGTTTTTTTTTCTTTTCT
1 CTTTG-TTTTTTTTCTTTGCT
4829996 CTTTGTTTT
1 CTTTGTTTT
4830005 GATCTTTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (20 bp):
CTTTGTTTTTTTTCTTTGCT
Found at i:4829987 original size:21 final size:21
Alignment explanation
Indices: 4829961--4830004 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4829951 TTTGCTTTGA
4829961 TTTTTTTCTTTGCTCTTTGTT
1 TTTTTTTCTTTGCTCTTTGTT
*
4829982 TTTTTTTCTTTTCTCTTTGTT
1 TTTTTTTCTTTGCTCTTTGTT
4830003 TT
1 TT
4830005 GATCTTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTTGCTCTTTGTT
Found at i:4830681 original size:26 final size:26
Alignment explanation
Indices: 4830603--4830684 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
4830593 TTTCAAGGTG
4830603 GAAAGAATGTTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
**
4830629 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
4830650 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
4830675 GATAGAATGT
1 GAAAGAATGT
4830685 CAAAATTTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 22 0.51
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (26 bp):
GAAAGAATGTTTCAAGGTCTCAAAGA
Found at i:4830683 original size:46 final size:45
Alignment explanation
Indices: 4830591--4830684 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 45
4830581 ATAAATACAG
* * *
4830591 TGTTTCAAGGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
4830636 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
4830682 TGT
1 TGT
4830685 CAAAATTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 11 0.25
46 33 0.75
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:4832124 original size:32 final size:32
Alignment explanation
Indices: 4832083--4832144 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
4832073 ATGAAAAATG
* *
4832083 ACACAAACAAAATAAACG-AAATAAGTTAGTGT
1 ACACAAACAAAACAAAAGAAAAT-AGTTAGTGT
4832115 ACACAAACAAAACAAAAGAAAATAGTTAGT
1 ACACAAACAAAACAAAAGAAAATAGTTAGT
4832145 ACAGGTAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.60, C:0.13, G:0.11, T:0.16
Consensus pattern (32 bp):
ACACAAACAAAACAAAAGAAAATAGTTAGTGT
Found at i:4834044 original size:2 final size:2
Alignment explanation
Indices: 4834037--4834077 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4834027 CTCATACATT
4834037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4834078 GGAAAACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4835705 original size:3 final size:3
Alignment explanation
Indices: 4835697--4835743 Score: 67
Period size: 3 Copynumber: 14.7 Consensus size: 3
4835687 ATGTAAATTA
4835697 AAT AAT AAT AAT AAT AAT AAT AAT AAAT ATAT AAAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT -AAT AAT AAT AAT AA
4835744 AAAAGACCCG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 33 0.80
4 7 0.17
5 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4840342 original size:20 final size:20
Alignment explanation
Indices: 4840315--4840355 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4840305 AACCCCATAT
*
4840315 GAAAAAACAAAGAAAAATAAA
1 GAAAAACCAAA-AAAAATAAA
*
4840336 GAAAAACCCAAAAAAATAAA
1 GAAAAACCAAAAAAAATAAA
4840356 AAATCTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.78, C:0.10, G:0.07, T:0.05
Consensus pattern (20 bp):
GAAAAACCAAAAAAAATAAA
Found at i:4850729 original size:16 final size:17
Alignment explanation
Indices: 4850703--4850740 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4850693 GGATAGAGAG
*
4850703 AGAAGAAAAGAGAAAAT
1 AGAAAAAAAGAGAAAAT
4850720 -GAAAAAAAGAGAAAAT
1 AGAAAAAAAGAGAAAAT
4850736 AGAAA
1 AGAAA
4850741 GGTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (17 bp):
AGAAAAAAAGAGAAAAT
Found at i:4855242 original size:18 final size:19
Alignment explanation
Indices: 4855214--4855262 Score: 75
Period size: 17 Copynumber: 2.6 Consensus size: 19
4855204 AATCAAGGCG
4855214 AGAACAAAGAAAAGAAATAA
1 AGAA-AAAGAAAAGAAATAA
4855234 A-AAAAAG-AAAGAAATAA
1 AGAAAAAGAAAAGAAATAA
4855251 AGAAAAAGAAAA
1 AGAAAAAGAAAA
4855263 AAAAATCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 11 0.41
18 10 0.37
19 5 0.19
20 1 0.04
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (19 bp):
AGAAAAAGAAAAGAAATAA
Found at i:4855246 original size:17 final size:18
Alignment explanation
Indices: 4855214--4855261 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 18
4855204 AATCAAGGCG
4855214 AGAACAAAGAAAAGAAATAA
1 AGAA-AAAG-AAAGAAATAA
4855234 A-AAAAAGAAAGAAATAA
1 AGAAAAAGAAAGAAATAA
4855251 AGAAAAAGAAA
1 AGAAAAAGAAA
4855262 AAAAAATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.41
18 13 0.48
19 2 0.07
20 1 0.04
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (18 bp):
AGAAAAAGAAAGAAATAA
Found at i:4857341 original size:54 final size:54
Alignment explanation
Indices: 4857259--4857570 Score: 335
Period size: 54 Copynumber: 5.8 Consensus size: 54
4857249 CCAAACAATA
* * *
4857259 TGATGTCTTCAAATGAATTTTTAAAGAAGCTATGCATGATTTTCAGGGGTTTCT
1 TGATGTCTTCAAATGAATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCT
* * * * *
4857313 TGATGTCTTCAAATGAATTTTTAAAGAAGCTAAGCTTGATTTTCAAGGTTTTTT
1 TGATGTCTTCAAATGAATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCT
* * * **
4857367 TTATGTTTTCAAATGGATTTTTAAAGGAGCTAAGCCTGATTTTCAGGAATTTCT
1 TGATGTCTTCAAATGAATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCT
* * * ** * * * *
4857421 TAATGAT-TACAAATGGATTTGGAAAGGATCGAAGCTTGATTTTAAGGGGTTTCT
1 TGATG-TCTTCAAATGAATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCT
*
4857475 TGATGTCTTCAAAT-AGATTTTAAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCT
1 TGATGTCTTCAAATGA-ATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCT
* **
4857529 TGATGT-TTACAAATGGATTTGGAAAGGAGCTAAGCCT-ATTTT
1 TGATGTCTT-CAAATGAATTTTTAAAGGAGCTAAGCCTGATTTT
4857571 TAGCGGTTCA
Statistics
Matches: 217, Mismatches: 36, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
53 8 0.04
54 208 0.96
55 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (54 bp):
TGATGTCTTCAAATGAATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCT
Found at i:4857572 original size:108 final size:107
Alignment explanation
Indices: 4857259--4857572 Score: 382
Period size: 108 Copynumber: 2.9 Consensus size: 107
4857249 CCAAACAATA
* * *
4857259 TGATGTCTTCAAATGAATTTTTAAAGAAGCTATGCATGATTTTCAGGGGTTTCTTGATGTCTT-C
1 TGATGTCTTCAAATG-ATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGT-TTAC
* ** * * * *
4857323 AAATGAATTTTTAAAGAAGCTAAGCTTGATTTTCAAGGTTTTTT
64 AAATGGATTTGGAAAGGAGCTAAGCTTGATTTTTAAGGGTTTCT
* * ** * *
4857367 TTATGTTTTCAAATGGATTTTTAAAGGAGCTAAGCCTGATTTTCAGGAATTTCTTAATGATTACA
1 TGATGTCTTCAAAT-GATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTACA
* *
4857432 AATGGATTTGGAAAGGATCGAAGCTTGA-TTTTAAGGGGTTTCT
65 AATGGATTTGGAAAGGAGCTAAGCTTGATTTTTAA-GGGTTTCT
*
4857475 TGATGTCTTCAAATAGATTTTAAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTACA
1 TGATGTCTTCAAAT-GATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTACA
*
4857540 AATGGATTTGGAAAGGAGCTAAGCCT-ATTTTTA
65 AATGGATTTGGAAAGGAGCTAAGCTTGATTTTTA
4857573 GCGGTTCAAA
Statistics
Matches: 173, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
107 8 0.05
108 164 0.95
109 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (107 bp):
TGATGTCTTCAAATGATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTACAA
ATGGATTTGGAAAGGAGCTAAGCTTGATTTTTAAGGGTTTCT
Found at i:4857669 original size:57 final size:57
Alignment explanation
Indices: 4857580--4857689 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
4857570 TTAGCGGTTC
* * * *
4857580 AAATGAATTTTTAAAGAAGTCAAGCCTAATTTTTAAGGGTTTCTTGATGATAAATGT
1 AAATGAATTTTTAAAGAAGCCAAGCCTAATTTTCAAAGGTTTCTCGATGATAAATGT
** * *
4857637 AAATGAATTTTTAAAGAAGCCAAGTTTGATTTTCAAATGTTTCTCGATGATAA
1 AAATGAATTTTTAAAGAAGCCAAGCCTAATTTTCAAAGGTTTCTCGATGATAA
4857690 GTCCTTCGGG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (57 bp):
AAATGAATTTTTAAAGAAGCCAAGCCTAATTTTCAAAGGTTTCTCGATGATAAATGT
Found at i:4858723 original size:81 final size:79
Alignment explanation
Indices: 4858529--4858824 Score: 339
Period size: 80 Copynumber: 3.7 Consensus size: 79
4858519 ATCAGAGAAG
* * * * *
4858529 GAGGTAGATCAATATTTCCACA-AAAGAAGTTCCTAATGAGAATAA-TATTTTCAACATTTCACT
1 GAGGTGGATCAATATTTCCA-ATGAAGAAGTTCCTAATGAGAAGAACT-TGTTCAACATTTTACT
4858592 CGATTCCATCACAAAA
64 CGATTCCATCACAAAA
** * *
4858608 GAAGGTAAATCAACATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTTAC-A
1 G-AGGTGGATCAATATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTTACTC
*
4858672 GATATTCTATCACAAAA
65 G--ATTCCATCACAAAA
* * *
4858689 TGAGGTGGGTCAATATTTCTAATGAAGAAGTTCCTAATGGGAAGAACTTGTTCAACATTTTACTC
1 -GAGGTGGATCAATATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTTACTC
*
4858754 GATTCCATCATAAAA
65 GATTCCATCACAAAA
* * *
4858769 GGAGGTGGATCAATATTTCCAATGAAGAACTGT-ATAATGAGAAGAACATGTTCAAC
1 -GAGGTGGATCAATATTTCCAATGAAGAAGT-TCCTAATGAGAAGAACTTGTTCAAC
4858825 CTTAGTTCGA
Statistics
Matches: 185, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
79 3 0.02
80 110 0.59
81 70 0.38
82 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (79 bp):
GAGGTGGATCAATATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTTACTCG
ATTCCATCACAAAA
Found at i:4865651 original size:238 final size:238
Alignment explanation
Indices: 4865349--4865829 Score: 953
Period size: 238 Copynumber: 2.0 Consensus size: 238
4865339 TCGAGTTTAT
4865349 AAGTATTATTTTATTATTTAATTTTTATTAATTTTTTCTGAGTCTAGTTTATCAAATTTAAATAT
1 AAGTATTATTTTATTATTTAATTTTTATTAATTTTTTCTGAGTCTAGTTTATCAAATTTAAATAT
4865414 AATTATTAATAATATTATAATATTCATTTATTTCAATTTTGATTATTCTCCTCTTGTAAATAATA
66 AATTATTAATAATATTATAATATTCATTTATTTCAATTTTGATTATTCTCCTCTTGTAAATAATA
4865479 TTCATAATAATATTTAATAAATCAAATATTAATTAAAATTATATATTATATTTATAATGTTATTT
131 TTCATAATAATATTTAATAAATCAAATATTAATTAAAATTATATATTATATTTATAATGTTATTT
4865544 TGTAAAGAAGATATTTTTAGAACAAAATATTGATAAGAGTAGA
196 TGTAAAGAAGATATTTTTAGAACAAAATATTGATAAGAGTAGA
4865587 AAGTATTATTTTATTATTTAATTTTTATTAATTTTTTCTGAGTCTAGTTTATCAAATTTAAATAT
1 AAGTATTATTTTATTATTTAATTTTTATTAATTTTTTCTGAGTCTAGTTTATCAAATTTAAATAT
4865652 AATTATTAATAATATTATAATATTCATTTATTTCAATTTTGATTATTCTCCTCTTGTAAATAATA
66 AATTATTAATAATATTATAATATTCATTTATTTCAATTTTGATTATTCTCCTCTTGTAAATAATA
*
4865717 TTCATAATAATATTTAATAAATCAAATATTAATTAATATTATATATTATATTTATAATGTTATTT
131 TTCATAATAATATTTAATAAATCAAATATTAATTAAAATTATATATTATATTTATAATGTTATTT
4865782 TGTAAAGAAGATATTTTTAGAACAAAATATTGATAAGAGTAGA
196 TGTAAAGAAGATATTTTTAGAACAAAATATTGATAAGAGTAGA
4865825 AAGTA
1 AAGTA
4865830 ATCAAATAAT
Statistics
Matches: 242, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 242 1.00
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.48
Consensus pattern (238 bp):
AAGTATTATTTTATTATTTAATTTTTATTAATTTTTTCTGAGTCTAGTTTATCAAATTTAAATAT
AATTATTAATAATATTATAATATTCATTTATTTCAATTTTGATTATTCTCCTCTTGTAAATAATA
TTCATAATAATATTTAATAAATCAAATATTAATTAAAATTATATATTATATTTATAATGTTATTT
TGTAAAGAAGATATTTTTAGAACAAAATATTGATAAGAGTAGA
Found at i:4868525 original size:31 final size:31
Alignment explanation
Indices: 4868490--4868557 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
4868480 ATGATGATTA
*
4868490 AATGACTATTCGATTACAGATCA-ATAACATT
1 AATGACTATTCGATTACAAAT-ATATAACATT
* **
4868521 AATGATTATTTTATTACAAATATATAACATT
1 AATGACTATTCGATTACAAATATATAACATT
4868552 AATGAC
1 AATGAC
4868558 CAATATGACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (31 bp):
AATGACTATTCGATTACAAATATATAACATT
Found at i:4869531 original size:22 final size:23
Alignment explanation
Indices: 4869488--4869532 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
4869478 TTTTTCACTT
*
4869488 TTTAATAAAATTGATCACTTTAA
1 TTTAATAAAATTGAACACTTTAA
* *
4869511 TTTAA-AAAATTTAACATTTTAA
1 TTTAATAAAATTGAACACTTTAA
4869533 ATATAATACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTAATAAAATTGAACACTTTAA
Found at i:4875127 original size:22 final size:23
Alignment explanation
Indices: 4875060--4875126 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 23
4875050 AAATAATATT
* * *
4875060 AAATAAATATTTATTTATTTTGTA
1 AAATTAATATTTAATTATTTT-AA
4875084 AAATTAATATTTAATTATTTTAA
1 AAATTAATATTTAATTATTTTAA
4875107 AAATTAA-ATTTATATTATTT
1 AAATTAATATTTA-ATTATTT
4875127 ATTTATGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.13
23 15 0.38
24 19 0.49
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
AAATTAATATTTAATTATTTTAA
Found at i:4875680 original size:35 final size:36
Alignment explanation
Indices: 4875637--4875709 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
4875627 GGAAAACAAC
*
4875637 ATTCCCTTTTACTAATAAAATCGTTTGATGAATTCT
1 ATTCCTTTTTACTAATAAAATCGTTTGATGAATTCT
** * *
4875673 ATTCCTTTTTACTGTTAAGATCGTTTGATGAGTTCT
1 ATTCCTTTTTACTAATAAAATCGTTTGATGAATTCT
4875709 A
1 A
4875710 AGACTAATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (36 bp):
ATTCCTTTTTACTAATAAAATCGTTTGATGAATTCT
Found at i:4879312 original size:22 final size:22
Alignment explanation
Indices: 4879271--4879315 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4879261 CATTGCATAA
4879271 AAATTAAACAGTTATAACTCCTG
1 AAATTAAACAG-TATAACTCCTG
4879294 AAATTAAATCAG-ATAACTCCTG
1 AAATTAAA-CAGTATAACTCCTG
4879316 TAACTCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 8 0.38
24 3 0.14
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATTAAACAGTATAACTCCTG
Found at i:4880283 original size:31 final size:31
Alignment explanation
Indices: 4880248--4880307 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
4880238 AATTTGGTGA
*
4880248 ATTCAATATGTCCTTCTCACTAGGAACTCTC
1 ATTCAATATGTCATTCTCACTAGGAACTCTC
4880279 ATTCAATATGTCATTCTCACTAGGAACTC
1 ATTCAATATGTCATTCTCACTAGGAACTC
4880308 CCAAACTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (31 bp):
ATTCAATATGTCATTCTCACTAGGAACTCTC
Found at i:4881694 original size:14 final size:14
Alignment explanation
Indices: 4881671--4881700 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4881661 TACCATTGTT
4881671 CTCATATAGATCTC
1 CTCATATAGATCTC
*
4881685 CTCATCTAGATCTC
1 CTCATATAGATCTC
4881699 CT
1 CT
4881701 TTCAAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (14 bp):
CTCATATAGATCTC
Done.