Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 90 of 210
Found at i:26404649 original size:10 final size:10
Alignment explanation
Indices: 26404636--26404676 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
26404626 AAAATTAGCC
26404636 TAATTAACTA
1 TAATTAACTA
26404646 TAATTAACTA
1 TAATTAACTA
*
26404656 -AACTTAATTA
1 TAA-TTAACTA
26404666 TAATTAA-TA
1 TAATTAACTA
26404675 TA
1 TA
26404677 GTTGGTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 6 0.21
10 20 0.71
11 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATTAACTA
Found at i:26407809 original size:22 final size:22
Alignment explanation
Indices: 26407784--26407878 Score: 118
Period size: 22 Copynumber: 4.3 Consensus size: 22
26407774 TTAACTGTAA
* * *
26407784 CATGTTTAACGAACTAAACCCT
1 CATGTTTAACGTACTAAGCTCT
**
26407806 CATGGCTAACGTACTAAGCTCT
1 CATGTTTAACGTACTAAGCTCT
**
26407828 CATGGCTAACGTACTAAGCTCT
1 CATGTTTAACGTACTAAGCTCT
*
26407850 CATGTTTCACGTACTAAGCTCT
1 CATGTTTAACGTACTAAGCTCT
26407872 CATGTTT
1 CATGTTT
26407879 GAACAATAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 65 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (22 bp):
CATGTTTAACGTACTAAGCTCT
Found at i:26409796 original size:5 final size:5
Alignment explanation
Indices: 26409786--26409817 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
26409776 AATTCAGCCC
26409786 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA AT
26409818 ACAAAAATCA
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:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCA
Found at i:26425394 original size:41 final size:41
Alignment explanation
Indices: 26425336--26425447 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 41
26425326 ATCCATTACT
*
26425336 CGGTGGATTCAGCACTTAGCAACCA-TGTTAAATTCAGTGATA
1 CGGTGAATT-AGCACTTAGCAACCACT-TTAAATTCAGTGATA
* * *
26425378 CGGTGAATTAGCACTTAACAACCACCTTTATATTTAGTGATA
1 CGGTGAATTAGCACTTAGCAACCA-CTTTAAATTCAGTGATA
* ** * *
26425420 CGGGGAATCGGCACATAGCAACCCCTTT
1 CGGTGAATTAGCACTTAGCAACCACTTT
26425448 CACAATCAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 18 0.31
42 39 0.67
43 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (41 bp):
CGGTGAATTAGCACTTAGCAACCACTTTAAATTCAGTGATA
Found at i:26425533 original size:26 final size:26
Alignment explanation
Indices: 26425504--26425556 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
26425494 AATCAATAAT
26425504 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
* *
26425530 TCGGGGAATCTGCACTTAGCGACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
26425556 T
1 T
26425557 TTTTATCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCCC
Found at i:26443727 original size:40 final size:40
Alignment explanation
Indices: 26443645--26443727 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
26443635 CTCTTCCCAC
* *
26443645 ATGGCCAAAAGGTTATAAATATAGTTTAAGAAATAGGGCA
1 ATGGCCAAAAGGTTATAAATATAGTTTAAGAAACAAGGCA
* * * * *
26443685 ATGGCCATAGGGTTATAAATGTAGTTTAAGATACAAGTCA
1 ATGGCCAAAAGGTTATAAATATAGTTTAAGAAACAAGGCA
26443725 ATG
1 ATG
26443728 AGATGGAGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (40 bp):
ATGGCCAAAAGGTTATAAATATAGTTTAAGAAACAAGGCA
Found at i:26444135 original size:16 final size:16
Alignment explanation
Indices: 26444111--26444164 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
26444101 TTTGGTTCGC
* *
26444111 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
26444127 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
26444143 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
26444159 TGTAAT
1 TGTAAT
26444165 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:26444209 original size:45 final size:44
Alignment explanation
Indices: 26444143--26444240 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
26444133 GGAATAGAGG
* *
26444143 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
26444188 TGTAATAGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
*
26444232 TGAAATAGA
1 TGTAATAGA
26444241 GGTATAATAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 24 0.52
45 22 0.48
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:26444406 original size:25 final size:25
Alignment explanation
Indices: 26444374--26444428 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
26444364 TAATTTAATC
*
26444374 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
26444398 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
26444423 ATATAT
1 ATATAT
26444429 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:26444632 original size:26 final size:28
Alignment explanation
Indices: 26444603--26444663 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
26444593 TATGAATTTG
*
26444603 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
26444629 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
26444657 TAAAATT
1 TATAATT
26444664 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:26444665 original size:91 final size:89
Alignment explanation
Indices: 26444569--26444785 Score: 299
Period size: 91 Copynumber: 2.4 Consensus size: 89
26444559 AATTTAAAAT
* * * *
26444569 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
26444634 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
26444660 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
26444725 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
*
26444751 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
26444786 CTAAAATCAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 89 0.80
92 22 0.20
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:26444666 original size:44 final size:42
Alignment explanation
Indices: 26444603--26444745 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
26444593 TATGAATTTG
26444603 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
26444647 TATAATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
26444694 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
26444738 TATAATTT
1 TATAATTT
26444746 CATAAAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:26444760 original size:47 final size:47
Alignment explanation
Indices: 26444610--26444766 Score: 128
Period size: 47 Copynumber: 3.4 Consensus size: 47
26444600 TTGTATAATT
* * * * *
26444610 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* ** * *
26444657 TAAAATTATTGATAAT-AAT-T--TTTCTTATATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATTTAATA-ATG-ATATATA-ATTTCA
* *
26444701 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
26444748 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
26444767 ATGTTCTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
43 5 0.06
44 15 0.19
45 13 0.16
46 12 0.15
47 31 0.38
48 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:26450132 original size:14 final size:14
Alignment explanation
Indices: 26450109--26450143 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
26450099 TAAAACTTTT
26450109 CTTT-AAAACATAA
1 CTTTAAAAACATAA
26450122 CTTTAAAAACATAA
1 CTTTAAAAACATAA
*
26450136 CTTGAAAA
1 CTTTAAAA
26450144 CTTATCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (14 bp):
CTTTAAAAACATAA
Found at i:26462200 original size:81 final size:81
Alignment explanation
Indices: 26462065--26462222 Score: 271
Period size: 81 Copynumber: 2.0 Consensus size: 81
26462055 AACATATCAA
* * * *
26462065 CTATCGGCTCAGTCATCTTTAGAGCATAAGCCTCCACTTATATCAAAGCACATAAGTTACGTACG
1 CTATCGCCTCAATCATCTTTAGAGAATAAGCCTCCACTTATATCAAAGCACATAAGTTACATACG
*
26462130 CATGGTTAGTGACTAG
66 CATGGTCAGTGACTAG
26462146 CTATCGCCTCAATCATCTTTAGAGAATAAGCCTCCACTTATATCAAAGCACATAAGTTACATACG
1 CTATCGCCTCAATCATCTTTAGAGAATAAGCCTCCACTTATATCAAAGCACATAAGTTACATACG
26462211 CATGGTCAGTGA
66 CATGGTCAGTGA
26462223 TTAACTCAAG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (81 bp):
CTATCGCCTCAATCATCTTTAGAGAATAAGCCTCCACTTATATCAAAGCACATAAGTTACATACG
CATGGTCAGTGACTAG
Found at i:26463711 original size:17 final size:17
Alignment explanation
Indices: 26463689--26463726 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
26463679 TAGATTTGGG
26463689 TTAAGAAAATTA-TTTAA
1 TTAAG-AAATTAGTTTAA
*
26463706 TTAAGAAATTAGTTTAT
1 TTAAGAAATTAGTTTAA
26463723 TTAA
1 TTAA
26463727 ATTAATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (17 bp):
TTAAGAAATTAGTTTAA
Found at i:26471016 original size:29 final size:29
Alignment explanation
Indices: 26470970--26471030 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
26470960 TACTGGTTGT
*
26470970 ACCTATTCATTGCAACCAATTTCGATTGC
1 ACCTATTCATTGCAACCAATTTCAATTGC
*
26470999 ACCTATTCATTGCGACCAATTTCAATTGC
1 ACCTATTCATTGCAACCAATTTCAATTGC
26471028 ACC
1 ACC
26471031 AGTCGATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (29 bp):
ACCTATTCATTGCAACCAATTTCAATTGC
Found at i:26471031 original size:15 final size:15
Alignment explanation
Indices: 26470975--26471028 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
26470965 GTTGTACCTA
26470975 TTCATTGCAACCAAT
1 TTCATTGCAACCAAT
*
26470990 TTCGATTGC-ACCTA-
1 TTC-ATTGCAACCAAT
*
26471004 TTCATTGCGACCAAT
1 TTCATTGCAACCAAT
26471019 TTCAATTGCA
1 TTC-ATTGCA
26471029 CCAGTCGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.16
14 7 0.22
15 10 0.31
16 10 0.31
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (15 bp):
TTCATTGCAACCAAT
Found at i:26471184 original size:3 final size:3
Alignment explanation
Indices: 26471176--26471205 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
26471166 GTAGAAAATT
26471176 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26471206 AAGTAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:26471548 original size:16 final size:17
Alignment explanation
Indices: 26471516--26471554 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
26471506 AATCTAATTC
*
26471516 ATTTGATATATTTAAAT
1 ATTTTATATATTTAAAT
26471533 ATTTTATATA-TTAAAT
1 ATTTTATATATTTAAAT
26471549 ATTTTA
1 ATTTTA
26471555 CAAAAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTATATATTTAAAT
Found at i:26472831 original size:17 final size:17
Alignment explanation
Indices: 26472796--26472834 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26472786 TTCAATTGTT
**
26472796 TTAAATATTTTAATTAA
1 TTAAATATTTTAAAAAA
*
26472813 TTAAATTTTTTAAAAAA
1 TTAAATATTTTAAAAAA
26472830 TTAAA
1 TTAAA
26472835 GATTACTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATATTTTAAAAAA
Found at i:26478702 original size:50 final size:50
Alignment explanation
Indices: 26478629--26478931 Score: 275
Period size: 50 Copynumber: 6.1 Consensus size: 50
26478619 AATTTATTTA
* ** *
26478629 ACTGCAATGTCGGGGAAGAAAGATTTTCCGTTGTGGCTTCAATCTGTTCC
1 ACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
** * * * ** * * **
26478679 ACTGCACCGCCTGAGAAGTAAGATTCGCTATTTTAGCTTCAATCTTTTTA
1 ACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* *
26478729 ACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
1 ACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* ** * * * * **
26478779 ACTGC-ATCGTCTGAAAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTA
1 ACTGCAAT-GTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * * *
26478829 ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTATTCC
1 ACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * ** *
26478879 ACTGCAATGTCAGGGAAATAAGATTAACCGTCGTAGCTTCAATCTGTTCC
1 ACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
26478929 ACT
1 ACT
26478932 ACTGCTTAGG
Statistics
Matches: 197, Mismatches: 54, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
49 2 0.01
50 193 0.98
51 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (50 bp):
ACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
Found at i:26478798 original size:100 final size:100
Alignment explanation
Indices: 26478625--26478884 Score: 394
Period size: 100 Copynumber: 2.6 Consensus size: 100
26478615 GTCCAATTTA
* **
26478625 TTTAACTGCAATGTCGGGGAAGAAAGATTTTCCGTTGTGGCTTCAATCTGTTCCACTGCACCGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCACCGCC
* * *
26478690 TGAGAAGTAAGATTCGCTATTTTAGCTTCAATCTT
66 TGAAAAGTAAGATTCGCTACTGTAGCTTCAATCTT
* * * * *
26478725 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCATCGTC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCACCGCC
* *
26478790 TGAAAAGTAAGATTCGCTGCTGTAGCTTTAATCTT
66 TGAAAAGTAAGATTCGCTACTGTAGCTTCAATCTT
*
26478825 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTATTCCACTGCA
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCA
26478885 ATGTCAGGGA
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 144 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCACCGCC
TGAAAAGTAAGATTCGCTACTGTAGCTTCAATCTT
Found at i:26478915 original size:100 final size:99
Alignment explanation
Indices: 26478625--26478923 Score: 350
Period size: 100 Copynumber: 3.0 Consensus size: 99
26478615 GTCCAATTTA
* ** ** *
26478625 TTTAACTGCAATGTCGGGGAAGAAAGATTTTCCGTTGTGGCTTCAATCTGTTCCACTGCACCGCC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCAATGTC
* * * **
26478690 TGAGAAGTAAGATTCGCTATTTTAGCTTCAATCTT
66 -GGGAAATAAGATTCGCTGTCGTAGCTTCAATCTT
* * *
26478725 TTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGC-ATCGT
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCAAT-GT
* * *
26478789 CTGAAAAGTAAGATTCGCTG-CTGTAGCTTTAATCTT
65 CGGGAAA-TAAGATTCGCTGTC-GTAGCTTCAATCTT
*
26478825 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTATTCCACTGCAATGTC
1 TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCAATGTC
** *
26478890 AGGGAAATAAGATTAACCGTCGTAGCTTCAATCT
66 -GGGAAATAAGATTCGCTGTCGTAGCTTCAATCT
26478924 GTTCCACTAC
Statistics
Matches: 167, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
99 2 0.01
100 158 0.95
101 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (99 bp):
TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCAATGTC
GGGAAATAAGATTCGCTGTCGTAGCTTCAATCTT
Found at i:26479081 original size:44 final size:44
Alignment explanation
Indices: 26478983--26479084 Score: 161
Period size: 44 Copynumber: 2.3 Consensus size: 44
26478973 ACTACTGCTA
*
26478983 AGGGAGATAAGGCTTACAATCTTCAACCTATTCCTACTGCTAACC
1 AGGGAGAT-AGGATTACAATCTTCAACCTATTCCTACTGCTAACC
*
26479028 AGGGAGATAGGATTCACAATCTTCAACCTATTCC-ACTGCTGACC
1 AGGGAGATAGGATT-ACAATCTTCAACCTATTCCTACTGCTAACC
26479072 AGGGAGATAGGAT
1 AGGGAGATAGGAT
26479085 CAGTGGCTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
44 27 0.50
45 27 0.50
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (44 bp):
AGGGAGATAGGATTACAATCTTCAACCTATTCCTACTGCTAACC
Found at i:26481236 original size:6 final size:6
Alignment explanation
Indices: 26481227--26481303 Score: 120
Period size: 6 Copynumber: 12.7 Consensus size: 6
26481217 TGGCCTCTCC
*
26481227 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
26481275 TTTTCT TTTT-T CTTTTCTT TTTTCT TTTT
1 TTTTCT TTTTCT -TTTTC-T TTTTCT TTTT
26481304 ATCATTTTCA
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
5 1 0.02
6 59 0.89
7 5 0.08
8 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:26481379 original size:21 final size:21
Alignment explanation
Indices: 26481339--26481378 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
26481329 ACTTTGATCA
26481339 TTTTTTAATTTTGACTTTTTC
1 TTTTTTAATTTTGACTTTTTC
*
26481360 TTTTTT-ATTTTGATTTTTT
1 TTTTTTAATTTTGACTTTTT
26481379 TATTGAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTTTAATTTTGACTTTTTC
Found at i:26482518 original size:24 final size:24
Alignment explanation
Indices: 26482460--26482520 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
26482450 GAAGAAAATC
* *
26482460 CAAAATAATGAAAGAATAATTATT
1 CAAAAAAATGAAAGAATAATTACT
* *
26482484 CGAAAAGAATGAAAGAAT-ATTGGCT
1 C-AAAAAAATGAAAGAATAATT-ACT
26482509 CAAAAAAATGAA
1 CAAAAAAATGAA
26482521 TGCAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 14 0.45
25 17 0.55
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.21
Consensus pattern (24 bp):
CAAAAAAATGAAAGAATAATTACT
Found at i:26483392 original size:9 final size:9
Alignment explanation
Indices: 26483378--26483412 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
26483368 TCTGCCTGCA
26483378 TTATTCCCC
1 TTATTCCCC
26483387 TTATTCCCC
1 TTATTCCCC
*
26483396 TTATTCCTC
1 TTATTCCCC
*
26483405 TTCTTCCC
1 TTATTCCC
26483413 TGGGACCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.43, G:0.00, T:0.49
Consensus pattern (9 bp):
TTATTCCCC
Found at i:26483980 original size:27 final size:27
Alignment explanation
Indices: 26483920--26483982 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
26483910 AGACTAATAA
26483920 GCGGCACCAAAGGTGCCATTCCCATAG
1 GCGGCACCAAAGGTGCCATTCCCATAG
* * * *
26483947 GCAGCACCGATGGTGCCATTCCCATGG
1 GCGGCACCAAAGGTGCCATTCCCATAG
*
26483974 GTGGCACCA
1 GCGGCACCA
26483983 CTCATGTTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (27 bp):
GCGGCACCAAAGGTGCCATTCCCATAG
Found at i:26484339 original size:40 final size:36
Alignment explanation
Indices: 26484279--26484364 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
26484269 AAACTAGTAT
* * *
26484279 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
26484315 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
26484355 TATTATTATT
1 TATTATTATT
26484365 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:26490314 original size:10 final size:10
Alignment explanation
Indices: 26490286--26490423 Score: 71
Period size: 10 Copynumber: 14.0 Consensus size: 10
26490276 TTCTTCTTTT
26490286 TTTTCTCTTCTC
1 TTTTCT-TTC-C
*
26490298 TTTTCCTTTTC
1 TTTT-CTTTCC
* *
26490309 -TTTCCTTCT
1 TTTTCTTTCC
*
26490318 TTTTCTTTCT
1 TTTTCTTTCC
*
26490328 TTTTGCTTATTC
1 TTTT-CTT-TCC
26490340 -TT-CTTTCC
1 TTTTCTTTCC
26490348 TTTTCTTTCC
1 TTTTCTTTCC
26490358 TTCTT-TTT-C
1 TT-TTCTTTCC
26490367 -TTTCTTTCC
1 TTTTCTTTCC
*
26490376 -TCTCATTTCC
1 TTTTC-TTTCC
*
26490386 TTTTCTTTCT
1 TTTTCTTTCC
26490396 TTTTCTTT-C
1 TTTTCTTTCC
26490405 -TTTCTTT-C
1 TTTTCTTTCC
26490413 TTCTTCTTTCC
1 TT-TTCTTTCC
26490424 CTCTCCTTCT
Statistics
Matches: 100, Mismatches: 12, Indels: 29
0.71 0.09 0.21
Matches are distributed among these distances:
7 2 0.02
8 14 0.14
9 14 0.14
10 49 0.49
11 12 0.12
12 7 0.07
13 2 0.02
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:26490317 original size:38 final size:39
Alignment explanation
Indices: 26490275--26490421 Score: 151
Period size: 38 Copynumber: 3.7 Consensus size: 39
26490265 TCTTCTTCTT
26490275 CTTCTTCTTT-TTT-TTCTCTTCTCTTTTCCTTTTCTTTC
1 CTTCTTCTTTCTTTCTT-TCTTCTCTTTTCCTTTTCTTTC
*
26490313 CTTCTT-TTTCTTTCTTTTTGCTTATTCTTCTTTCCTTTTCTTTC
1 CTTCTTCTTTCTTTC--TTT-CTT-CTC-T-TTTCCTTTTCTTTC
* *
26490357 CTTCTT-TTTCTTTCTTTCCTCTCATTTCCTTTTCTTT-
1 CTTCTTCTTTCTTTCTTTCTTCTCTTTTCCTTTTCTTTC
*
26490394 CTTTTTCTTTCTTTCTTTCTTCTTCTTT
1 CTTCTTCTTTCTTTCTTTCTTC-TCTTT
26490422 CCCTCTCCTT
Statistics
Matches: 92, Mismatches: 7, Indels: 19
0.78 0.06 0.16
Matches are distributed among these distances:
37 8 0.09
38 36 0.39
39 4 0.04
40 3 0.03
41 7 0.08
42 5 0.05
43 1 0.01
44 28 0.30
ACGTcount: A:0.01, C:0.27, G:0.01, T:0.71
Consensus pattern (39 bp):
CTTCTTCTTTCTTTCTTTCTTCTCTTTTCCTTTTCTTTC
Found at i:26490324 original size:44 final size:44
Alignment explanation
Indices: 26490269--26490421 Score: 134
Period size: 44 Copynumber: 3.4 Consensus size: 44
26490259 CTCCCCTCTT
*
26490269 CTTCTTCTTCTTCTTTTTTTTCTCTTCTCTTTTCCTTTTCTTTC
1 CTTCTTTTTCTTCTTTTTTTTCTCTTCTCTTTTCCTTTTCTTTC
* * *
26490313 CTTCTTTTTCTT-TCTTTTTGCTTATTCT-TCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTCTTTTTTTTC-TCTTCTCT-TTTCCTTTTCTTTC
* *
26490357 CTTCTTTTTCTTTCTTTCCTCTCATTTC-CTTTTC-TTTCTTTTTCTTTC
1 CTTCTTTTTC-TTCTTT--T-T--TTTCTCTTCTCTTTTCCTTTTCTTTC
*
26490405 TTTCTTTCTTCTTCTTT
1 CTTCTTT-TTCTTCTTT
26490422 CCCTCTCCTT
Statistics
Matches: 88, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
43 8 0.09
44 40 0.45
45 2 0.02
46 2 0.02
48 26 0.30
49 7 0.08
51 3 0.03
ACGTcount: A:0.01, C:0.27, G:0.01, T:0.71
Consensus pattern (44 bp):
CTTCTTTTTCTTCTTTTTTTTCTCTTCTCTTTTCCTTTTCTTTC
Found at i:26490354 original size:30 final size:30
Alignment explanation
Indices: 26490276--26490422 Score: 97
Period size: 30 Copynumber: 4.7 Consensus size: 30
26490266 CTTCTTCTTC
26490276 TTCTTCTTT-TTTTTCTCTTCTCTTTTCCTT
1 TTCTTCTTTCTTTTTCT-TTCTCTTTTCCTT
* *
26490306 TTCTTTCCTTCTTTTTCTTTCT-TTTTGCTT
1 TTC-TTCTTTCTTTTTCTTTCTCTTTTCCTT
*
26490336 ATTCTTCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTT
1 -TTCTTCTTTCTTTTTCTTT-C-TC-TTTTC---CTT
* *
26490373 TCCTCTCATTTCCTTTTCTTTCT-TTTT-C-T
1 TTCT-TC-TTTCTTTTTCTTTCTCTTTTCCTT
*
26490402 TTCTTTCTTTCTTCTTCTTTC
1 TTC-TTCTTTCTTTTTCTTTC
26490423 CCTCTCCTTC
Statistics
Matches: 95, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
28 12 0.13
29 5 0.05
30 26 0.27
31 13 0.14
32 8 0.08
34 8 0.08
36 4 0.04
37 6 0.06
38 13 0.14
ACGTcount: A:0.01, C:0.27, G:0.01, T:0.71
Consensus pattern (30 bp):
TTCTTCTTTCTTTTTCTTTCTCTTTTCCTT
Found at i:26490419 original size:14 final size:14
Alignment explanation
Indices: 26490265--26490422 Score: 85
Period size: 14 Copynumber: 11.9 Consensus size: 14
26490255 CTTCCTCCCC
26490265 TCTTCTTC-TTC-T
1 TCTTCTTCTTTCTT
26490277 TCTTCTT-TTT-TT
1 TCTTCTTCTTTCTT
26490289 TC-TCTTCTCTT-TT
1 TCTTCTTCT-TTCTT
* *
26490302 CCTT-TTCTTTCCT
1 TCTTCTTCTTTCTT
*
26490315 TCTTTTTCTTTCTT
1 TCTTCTTCTTTCTT
*
26490329 T-TTGCTT-ATTC-T
1 TCTT-CTTCTTTCTT
*
26490341 TCTT-TCCTTTTCTT
1 TCTTCTTC-TTTCTT
26490355 TCCTTCTT-TTTCTT
1 T-CTTCTTCTTTCTT
* *
26490369 TCTT-TCCTCTCATT
1 TCTTCTTCTTTC-TT
26490383 TCCTT-TTCTTTCTT
1 T-CTTCTTCTTTCTT
26490397 T-TTCTTTCTTTCTT
1 TCTTC-TTCTTTCTT
26490411 TCTTCTTCTTTC
1 TCTTCTTCTTTC
26490423 CCTCTCCTTC
Statistics
Matches: 113, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
11 5 0.04
12 20 0.18
13 29 0.26
14 44 0.39
15 14 0.12
16 1 0.01
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (14 bp):
TCTTCTTCTTTCTT
Found at i:26490431 original size:82 final size:79
Alignment explanation
Indices: 26490236--26490436 Score: 207
Period size: 82 Copynumber: 2.5 Consensus size: 79
26490226 AAAAATTACC
* * *
26490236 TTTTCTTTCTTTCTTTTTCCTTCCTCCCCTCTTCTTCTTC-TTCTTCTTTTTTTTCTCTTCTCTT
1 TTTTCTTTCTTTCTTTTTCCTTCATTCCCTCTCCTT-TTCTTTCTTCTTTTTTTTCTCTTCTCTT
26490300 TTCCTTTTCTTTCCT
65 TTCCTTTTCTTTCCT
* * * *
26490315 TCTT-TTTCTTTCTTTTTGCTT-ATTCTTCTTTCCTTTTCTTTCCTTCTTTTTCTTTCT-TTCCT
1 TTTTCTTTCTTTCTTTTTCCTTCATTC-CCTCTCCTTTTCTTT-CTTCTTTTT-TTTCTCTT-CT
26490377 CTCATTTCCTTTTCTTT-CT
62 CT--TTTCCTTTTCTTTCCT
* *
26490396 TTTTCTTTCTTTCTTTCTT-CTTCTTTCCCTCTCCTTCTCTT
1 TTTTCTTTCTTTCTTT-TTCCTTCATTCCCTCTCCTTTTCTT
26490437 CCCCCCACCC
Statistics
Matches: 100, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
77 5 0.05
78 24 0.24
79 14 0.14
80 9 0.09
81 5 0.05
82 38 0.38
83 5 0.05
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (79 bp):
TTTTCTTTCTTTCTTTTTCCTTCATTCCCTCTCCTTTTCTTTCTTCTTTTTTTTCTCTTCTCTTT
TCCTTTTCTTTCCT
Found at i:26490505 original size:27 final size:27
Alignment explanation
Indices: 26490475--26490539 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
26490465 TATATAGGCA
* * *
26490475 GTGCGGCCCATGGGAATGGCACCATCG
1 GTGCCGCCCATGAGAAAGGCACCATCG
* * *
26490502 GTGCCGCCTATGAGAAAGGCACCTTTG
1 GTGCCGCCCATGAGAAAGGCACCATCG
26490529 GTGCCGCCCAT
1 GTGCCGCCCAT
26490540 CGGATACCCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.18
Consensus pattern (27 bp):
GTGCCGCCCATGAGAAAGGCACCATCG
Found at i:26497504 original size:170 final size:173
Alignment explanation
Indices: 26497221--26497563 Score: 539
Period size: 170 Copynumber: 2.0 Consensus size: 173
26497211 GCTAGGAAGG
* * **
26497221 TATTTGCGTGAGGAATATCATTGTTTACACAAACAGCGGAACAATTTTGGGACATCACGTCTACT
1 TATTTGCGTGAGGAATATCATCGTTTACACAAACAGCAGAACAATTTAAGGACATCACGTCTACT
**
26497286 GGTCAGCTAGTAAAGTAAATATACTTTCACAATGGAAGGTTCAAGGGTTGATG-CCTA-CCTATG
66 GGTCAGCTAGTAAAGTAAATATACTTTCACAAAAGAAGGTTCAAGGGTTGATGTCCTATCCTATG
26497349 CAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTTAAC
131 CAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTTAAC
* * * * *
26497392 TATTTGCGTGAGGAATATTATCGTTTACATAAACGGCAGAACAGTTTAAGGACATCGCGTC-ACT
1 TATTTGCGTGAGGAATATCATCGTTTACACAAACAGCAGAACAATTTAAGGACATCACGTCTACT
26497456 GGTCAGCTAGTAAAGTAAATATACTTTCACAAAAGAAGGTTCAAGGGTTGATGTCTACCTATCCT
66 GGTCAGCTAGTAAAGTAAATATACTTTCACAAAAGAAGGTTCAAGGGTTGATG--T-CCTATCCT
26497521 ATGCAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTT
128 ATGCAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTT
26497564 TAAGTCTCGT
Statistics
Matches: 156, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
170 54 0.35
171 52 0.33
174 4 0.03
175 46 0.29
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (173 bp):
TATTTGCGTGAGGAATATCATCGTTTACACAAACAGCAGAACAATTTAAGGACATCACGTCTACT
GGTCAGCTAGTAAAGTAAATATACTTTCACAAAAGAAGGTTCAAGGGTTGATGTCCTATCCTATG
CAAATATCGAACATAGAATCTATCACCTCTTTGAGTCTTTAAC
Found at i:26497730 original size:17 final size:18
Alignment explanation
Indices: 26497708--26497741 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26497698 TCTCTTAGTT
26497708 TAATA-TTGAATTTTTTC
1 TAATATTTGAATTTTTTC
26497725 TAATATTTGAATTTTTT
1 TAATATTTGAATTTTTT
26497742 TTCATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (18 bp):
TAATATTTGAATTTTTTC
Found at i:26506370 original size:23 final size:24
Alignment explanation
Indices: 26506318--26506364 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
26506308 TTAGCTCTCA
*
26506318 TGAGCTTCCCGTTATATGGTTCTTG
1 TGAGCTTCCCGTTATA-GGCTCTTG
26506343 TGAGCTTCCCGTTATA-GCTCTT
1 TGAGCTTCCCGTTATAGGCTCTT
26506365 CGGAGCGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
25 16 0.76
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (24 bp):
TGAGCTTCCCGTTATAGGCTCTTG
Found at i:26506375 original size:23 final size:23
Alignment explanation
Indices: 26506296--26506375 Score: 56
Period size: 25 Copynumber: 3.3 Consensus size: 23
26506286 AGTTCAAAAA
* *
26506296 AGCGTCCCATTATTAGCTC-TCATG
1 AGCGTCCCGTTA-TAGCTCTTC-GG
* *
26506320 AGCTTCCCGTTATATGGTTCTT-GTG
1 AGCGTCCCGTTATA--GCTCTTCG-G
*
26506345 AGCTTCCCGTTATAGCTCTTCGG
1 AGCGTCCCGTTATAGCTCTTCGG
26506368 AGCGTCCC
1 AGCGTCCC
26506376 AATAGGTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
23 15 0.33
24 11 0.24
25 18 0.40
26 1 0.02
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (23 bp):
AGCGTCCCGTTATAGCTCTTCGG
Found at i:26506530 original size:25 final size:23
Alignment explanation
Indices: 26506476--26506535 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 23
26506466 GGCTATTTGT
* *
26506476 GAGCTTCCCGATATGGCTCGCTT
1 GAGCTTCCCGATATGGCTAGCTA
* *
26506499 GAACTTCCCGAGATATGGCTATCTA
1 GAGCTTCCC--GATATGGCTAGCTA
*
26506524 GAGCTTCTCGAT
1 GAGCTTCCCGAT
26506536 TAATGGCTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
23 11 0.38
25 18 0.62
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (23 bp):
GAGCTTCCCGATATGGCTAGCTA
Found at i:26512211 original size:22 final size:20
Alignment explanation
Indices: 26512153--26512211 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
26512143 AACTATAATA
26512153 TATTATTATTTTTTAC-TTTG
1 TATT-TTATTTTTTACTTTTG
* *
26512173 TATTTTAATATTTTACTTAATTT
1 TATTTT-ATTTTTTACTT--TTG
26512196 TATTTTATTTTTTACT
1 TATTTTATTTTTTACT
26512212 AATGTGGCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 2 0.06
20 12 0.38
21 1 0.03
22 9 0.28
23 8 0.25
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTTATTTTTTACTTTTG
Found at i:26517543 original size:16 final size:17
Alignment explanation
Indices: 26517517--26517570 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
26517507 ATTTAACTAT
*
26517517 TATCTTATAATAGTTTA
1 TATCTTATAATAGTATA
26517534 TATC-TATAATAGTATA
1 TATCTTATAATAGTATA
*
26517550 TATACATATATATA-TATA
1 TAT-CTTATA-ATAGTATA
26517568 TAT
1 TAT
26517571 ATAAGCACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 14 0.42
17 5 0.15
18 11 0.33
19 3 0.09
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (17 bp):
TATCTTATAATAGTATA
Found at i:26517553 original size:2 final size:2
Alignment explanation
Indices: 26517532--26517573 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
26517522 TATAATAGTT
* *
26517532 TA TA TC TA TA -A TA GTA TA TA TA CA 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
26517574 AGCACGAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:26519971 original size:17 final size:18
Alignment explanation
Indices: 26519949--26519990 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
26519939 ATAAATAAGA
*
26519949 ATTTAATTTATTAAA-AT
1 ATTTAATTAATTAAATAT
*
26519966 ATTTAATTAATTAAATTT
1 ATTTAATTAATTAAATAT
26519984 ATTTAAT
1 ATTTAAT
26519991 AAAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTAATTAATTAAATAT
Found at i:26522461 original size:22 final size:22
Alignment explanation
Indices: 26522429--26522477 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
26522419 AGGTGCACTT
26522429 GTTTTAATCAAAATTTTAATTA
1 GTTTTAATCAAAATTTTAATTA
* *
26522451 GTTTTAGTCAAATTTTTAATTA
1 GTTTTAATCAAAATTTTAATTA
26522473 GTTTT
1 GTTTT
26522478 GCGACGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (22 bp):
GTTTTAATCAAAATTTTAATTA
Found at i:26523317 original size:2 final size:2
Alignment explanation
Indices: 26523310--26523337 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26523300 CAACTCATAA
26523310 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
26523338 TACAAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26528129 original size:21 final size:21
Alignment explanation
Indices: 26528100--26528146 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
26528090 ATGCTAGCAA
* *
26528100 ATAAAAACATCTAAAATACAT
1 ATAACAACATCCAAAATACAT
26528121 ATAACAACATCCAAAATACAT
1 ATAACAACATCCAAAATACAT
26528142 ATAAC
1 ATAAC
26528147 CACAAGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (21 bp):
ATAACAACATCCAAAATACAT
Found at i:26529095 original size:21 final size:20
Alignment explanation
Indices: 26529049--26529097 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
26529039 ATTTAAAAAA
26529049 AAATAATTTTAACAGTTTTT
1 AAATAATTTTAACAGTTTTT
26529069 --ATAATTCTTAATCA-TTTTT
1 AAATAATT-TTAA-CAGTTTTT
26529088 AAATAATTTT
1 AAATAATTTT
26529098 TTATAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 4 0.16
21 6 0.24
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (20 bp):
AAATAATTTTAACAGTTTTT
Found at i:26533058 original size:85 final size:85
Alignment explanation
Indices: 26532964--26533123 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 85
26532954 ATGGCATACG
* * * * ** *
26532964 ACCGTGTGAAACCATGCAGGCTGTGTGGGGCACATGGCTGCGTAAAATCGTGCAGCCCGTAAGGT
1 ACCGTGTGAAACCATGCAGGCCGTGTGGGACAAATGGCCGCGTAAAATCACGCAGCCCGTAAGGC
26533029 TTGACCATGTAGGGCAAACA
66 TTGACCATGTAGGGCAAACA
* **
26533049 ACCGTGTGAAACCATGCAGGCCGTGTGGGACAAATGGCCGCGTGAAATCACGCAGCCCGTGTGGC
1 ACCGTGTGAAACCATGCAGGCCGTGTGGGACAAATGGCCGCGTAAAATCACGCAGCCCGTAAGGC
26533114 TTGACCATGT
66 TTGACCATGT
26533124 GAGATTTTGC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.19
Consensus pattern (85 bp):
ACCGTGTGAAACCATGCAGGCCGTGTGGGACAAATGGCCGCGTAAAATCACGCAGCCCGTAAGGC
TTGACCATGTAGGGCAAACA
Found at i:26533459 original size:40 final size:40
Alignment explanation
Indices: 26533414--26533498 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
26533404 CCGATTCGAC
26533414 TATGTAATATGTTATGCTATGATCTGTATAAGTTATGTGT
1 TATGTAATATGTTATGCTATGATCTGTATAAGTTATGTGT
26533454 TATGTAATATGTTATGCTATGATCTGTATAAGTTATGTGT
1 TATGTAATATGTTATGCTATGATCTGTATAAGTTATGTGT
26533494 TATGT
1 TATGT
26533499 TACGCTTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (40 bp):
TATGTAATATGTTATGCTATGATCTGTATAAGTTATGTGT
Found at i:26533814 original size:5 final size:5
Alignment explanation
Indices: 26533804--26533854 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
26533794 TAGGACTTTG
*** *
26533804 TATGA TATGA TCCAA TATGA TATGA TATGA TATGA -ATCGA TATGT TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TAT-GA TATGA TATGA
26533854 T
1 T
26533855 TTATGATTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
4 2 0.06
5 32 0.89
6 2 0.06
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (5 bp):
TATGA
Found at i:26539645 original size:2 final size:2
Alignment explanation
Indices: 26539638--26539667 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26539628 GTGATCTTTG
26539638 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
26539668 GATAAGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26554030 original size:3 final size:3
Alignment explanation
Indices: 26554024--26554052 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26554014 ATAATAATGA
26554024 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
26554053 CCAAAACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:26571149 original size:18 final size:18
Alignment explanation
Indices: 26571122--26571165 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
26571112 TTTAAAATTC
* *
26571122 ATGACCGCGATATCCGCA
1 ATGACTGCGATACCCGCA
26571140 ATGACTGCGATACCCGCA
1 ATGACTGCGATACCCGCA
26571158 ATGACTGC
1 ATGACTGC
26571166 AATAGCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.32, G:0.23, T:0.18
Consensus pattern (18 bp):
ATGACTGCGATACCCGCA
Found at i:26572531 original size:22 final size:20
Alignment explanation
Indices: 26572502--26572545 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
26572492 CCGGATGTGG
*
26572502 TTATTAAAAATCATTAAAATA
1 TTATTAAAAATCA-CAAAATA
26572523 TTATCTAAAAATCACAAAATA
1 TTAT-TAAAAATCACAAAATA
26572544 TT
1 TT
26572546 TTTCAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (20 bp):
TTATTAAAAATCACAAAATA
Found at i:26572609 original size:27 final size:27
Alignment explanation
Indices: 26572557--26572609 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
26572547 TTCAATAATT
* * *
26572557 ATATAAGTTATTAAAAAATTTCAAAAA
1 ATATAAATTATTAAAAAATATAAAAAA
26572584 ATATAAATTATT-AAAAATAATAAAAA
1 ATATAAATTATTAAAAAAT-ATAAAAA
26572610 TGAAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
ATATAAATTATTAAAAAATATAAAAAA
Found at i:26572839 original size:12 final size:12
Alignment explanation
Indices: 26572822--26572847 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26572812 CAAAACAGGC
26572822 TTTTAGCGGCGT
1 TTTTAGCGGCGT
26572834 TTTTAGCGGCGT
1 TTTTAGCGGCGT
26572846 TT
1 TT
26572848 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:26573089 original size:114 final size:113
Alignment explanation
Indices: 26572890--26573263 Score: 495
Period size: 114 Copynumber: 3.3 Consensus size: 113
26572880 AAAAAAAGCA
* * * * *
26572890 TTAGCGGCGTTGTTGAGAAAGTGCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTAAGCTT
* *
26572954 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCGGGGTT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC-CAGGGCT
* * *
26573003 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACTCCGTTTTTTAAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTAAGCTT
* * *
26573068 TCGGGGATTTAGCGGCGTTTTTAAGTATGTGCCGCTAATGCCTAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCC-AGGGCT
* *
26573117 TTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAA-CT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT-TTAAGCT
* *
26573181 TTCAGGGATTTAGCGGCGTTTTT-GGTAAAGCGCCGCTAATGCCCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAATG-CCAGGGCT
* *
26573231 TTAGCGGCGTTTTTG-GAAAAACGCCACAAAAAA
1 TTAGCGGCGTTTTTGAG-AAAGCGCCGCAAAAAA
26573264 TAAATCAACT
Statistics
Matches: 229, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
113 25 0.11
114 199 0.87
115 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTAAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCCAGGGCT
Found at i:26574009 original size:14 final size:15
Alignment explanation
Indices: 26573981--26574013 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
26573971 AGGTTTTATA
26573981 GATTATGGAATTAGG
1 GATTATGGAATTAGG
26573996 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
26574010 GATT
1 GATT
26574014 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:26574196 original size:14 final size:14
Alignment explanation
Indices: 26574173--26574242 Score: 81
Period size: 14 Copynumber: 5.1 Consensus size: 14
26574163 ATATATTAAA
*
26574173 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
26574187 TAAGGGTTAGGGGT
1 TAAGGGTTAGGGGT
**
26574201 TAAGGGTTAGGAAT
1 TAAGGGTTAGGGGT
*
26574215 TTAGGGTTAGGGGT
1 TAAGGGTTAGGGGT
*
26574229 T-A-GGTTATGGGT
1 TAAGGGTTAGGGGT
26574241 TA
1 TA
26574243 GATGTTAAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
12 10 0.21
13 1 0.02
14 37 0.77
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:26574228 original size:7 final size:7
Alignment explanation
Indices: 26574179--26574232 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
26574169 TAAATAAGGT
26574179 TTAGGGG
1 TTAGGGG
*
26574186 TTAAGGG
1 TTAGGGG
26574193 TTAGGGG
1 TTAGGGG
*
26574200 TTAAGGG
1 TTAGGGG
**
26574207 TTAGGAAT
1 TTAGG-GG
26574215 TTA-GGG
1 TTAGGGG
26574221 TTAGGGG
1 TTAGGGG
26574228 TTAGG
1 TTAGG
26574233 TTATGGGTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 3 0.08
7 31 0.84
8 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:26574247 original size:164 final size:165
Alignment explanation
Indices: 26574053--26574373 Score: 522
Period size: 164 Copynumber: 2.0 Consensus size: 165
26574043 TTATGGGTTA
* *
26574053 AGGGTTAAGGGTTATGTTAGGGGTTAGATGTTAAGAGTTAGGGATTTAGGGTTTA-AAAATTTGA
1 AGGGTTAAGGGTTAGGTTAGGGGTTAGATGTTAAGAGTTAGGGATTTAGGGTTTATAAAA-TCGA
26574117 TGTTAAGTTAGAGTTTAGGG-TTTAGATTAATTAGTGTATTTTAATTATATATTAAATAAGGTTT
65 TGTTAAGTTAGAGTTTAGGGATTTAGATTAATTAGTGTATTTTAATTATATATTAAATAAGGTTT
*
26574181 AGGGGTTA-AGGGTTAGGGGTTAAGGGTTAGGAATTT
130 AGGGATTAGA-GGTTAGGGGTTAAGGGTTAGGAATTT
* * *
26574217 AGGGTTAGGGGTTAGGTTATGGGTTAGATGTTAAGAGTTAGGGATTTAGGGTTTATAAAATCGGT
1 AGGGTTAAGGGTTAGGTTAGGGGTTAGATGTTAAGAGTTAGGGATTTAGGGTTTATAAAATCGAT
* * *
26574282 GTTAGGTTAGAGTTTAGGGATTTAGATTAATTAGTGTGTTTTAATTATATATTAAATATGGTTTA
66 GTTAAGTTAGAGTTTAGGGATTTAGATTAATTAGTGTATTTTAATTATATATTAAATAAGGTTTA
26574347 GGGATTAGAGGTTAGGGGTTAAGGGTT
131 GGGATTAGAGGTTAGGGGTTAAGGGTT
26574374 GGGGATCGGG
Statistics
Matches: 145, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
164 73 0.50
165 71 0.49
166 1 0.01
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (165 bp):
AGGGTTAAGGGTTAGGTTAGGGGTTAGATGTTAAGAGTTAGGGATTTAGGGTTTATAAAATCGAT
GTTAAGTTAGAGTTTAGGGATTTAGATTAATTAGTGTATTTTAATTATATATTAAATAAGGTTTA
GGGATTAGAGGTTAGGGGTTAAGGGTTAGGAATTT
Found at i:26574467 original size:82 final size:81
Alignment explanation
Indices: 26574358--26574594 Score: 310
Period size: 76 Copynumber: 3.0 Consensus size: 81
26574348 GGATTAGAGG
*
26574358 TTAGGGGTTAAGGG--TTGGGGATCGGGTTATGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAA
1 TTAGGGGTT-AGGGATTTGGGG-TCGGGTTA-GGTTTAAGGTTTAGATTAATTAGTGTTTTTTAA
*
26574421 GTTATATATTAAATAAAAT
63 TTTATATATTAAATAAAAT
26574440 TTAGGGGTTAGGGATTTGGGGTC--G---GGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTT
1 TTAGGGGTTAGGGATTTGGGGTCGGGTTAGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTT
* *
26574500 TTATATTAAATAAAGT
66 ATATATTAAATAAAAT
* **
26574516 TTAGGGGTTAGGGATTTGGGGTCGGGTTAGGGTTTAAGATTT-GAATTAATTAGTACTTTTTAAT
1 TTAGGGGTTAGGGATTTGGGGTCGGGTTA-GGTTTAAGGTTTAG-ATTAATTAGTGTTTTTTAAT
26574580 TTATATATTAAATAA
64 TTATATATTAAATAA
26574595 GTTATTTATA
Statistics
Matches: 138, Mismatches: 8, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
76 71 0.51
78 1 0.01
80 1 0.01
81 5 0.04
82 54 0.39
83 6 0.04
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.44
Consensus pattern (81 bp):
TTAGGGGTTAGGGATTTGGGGTCGGGTTAGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTT
ATATATTAAATAAAAT
Found at i:26574696 original size:21 final size:21
Alignment explanation
Indices: 26574643--26574696 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
26574633 TAAAGATTAT
26574643 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
26574664 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
26574685 TAATTTAAAATT
1 TAATTTAAAATT
26574697 ATAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:26574705 original size:9 final size:9
Alignment explanation
Indices: 26574691--26574751 Score: 58
Period size: 9 Copynumber: 7.1 Consensus size: 9
26574681 ATAATAATTT
26574691 AAAATTATA
1 AAAATTATA
*
26574700 AAAATTGT-
1 AAAATTATA
*
26574708 AAAATTGTAA
1 AAAATTAT-A
*
26574718 AAAATTGTA
1 AAAATTATA
26574727 AAAATTATA
1 AAAATTATA
26574736 AAAA--AT-
1 AAAATTATA
26574742 AAAATTATA
1 AAAATTATA
26574751 A
1 A
26574752 TTTGAATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 4 0.09
7 2 0.04
8 10 0.22
9 21 0.47
10 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:26574730 original size:19 final size:18
Alignment explanation
Indices: 26574686--26574741 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 18
26574676 TGAATATAAT
26574686 AATT-TAAAATTAT-AAA
1 AATTGTAAAATTATAAAA
*
26574702 AATTGTAAAATTGTAAAA
1 AATTGTAAAATTATAAAA
26574720 AATTGTAAAAATTATAAAA
1 AATTGT-AAAATTATAAAA
26574739 AAT
1 AAT
26574742 AAAATTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
16 4 0.11
17 8 0.23
18 9 0.26
19 14 0.40
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTGTAAAATTATAAAA
Found at i:26574741 original size:10 final size:9
Alignment explanation
Indices: 26574691--26574739 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
26574681 ATAATAATTT
*
26574691 AAAATTATA
1 AAAATTGTA
26574700 AAAATTGT-
1 AAAATTGTA
26574708 AAAATTGTAA
1 AAAATTGT-A
26574718 AAAATTGTA
1 AAAATTGTA
*
26574727 AAAATTATA
1 AAAATTGTA
26574736 AAAA
1 AAAA
26574740 ATAAAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
10 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (9 bp):
AAAATTGTA
Found at i:26578660 original size:43 final size:42
Alignment explanation
Indices: 26578606--26578855 Score: 302
Period size: 43 Copynumber: 5.9 Consensus size: 42
26578596 TTTTTGCGAG
* * **
26578606 AAGCGTCGCTAAAGGTCTTGAGCTATAGCAACGTTTGTGAAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTG-AAA
* * * * * *
26578649 AAACGCCGCTAAAAGTCGTAATCTATAGCAGCGTTTTTTGAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCG-TTTGTGAAA
* * *
26578692 AAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGTAT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GAAA
* *
26578735 AAGCTCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAA
* * *
26578777 AAGCGCCGTTAAAGATCCTGATCTATAGCGGCGTTTGTTGAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTG-TGAAA
26578820 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
26578856 ATTTATAAAA
Statistics
Matches: 174, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
42 38 0.22
43 131 0.75
44 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAA
Found at i:26578813 original size:85 final size:85
Alignment explanation
Indices: 26578606--26578855 Score: 302
Period size: 85 Copynumber: 2.9 Consensus size: 85
26578596 TTTTTGCGAG
* * * ** * * * * *
26578606 AAGCGTCGCTAAAGGTCTTGAGCTATAGCAACGTTTGTGAAAAAAACGCCGCTAAAAGTCGTAAT
1 AAGCGCCGCTAAAGATCCTGAGCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAT
* * *
26578671 CTATAGCAGCGTTTTTTGAAA
66 CTATAGCGGCG-TTTGTAAAA
* * * * *
26578692 AAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGTATAAGCTCCGCTAAAGGTCTTGAT
1 AAGCGCCGCTAAAGATCCTGAGCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAT
26578757 CTATAGCGGCGTTTGTAAAA
66 CTATAGCGGCGTTTGTAAAA
* * *
26578777 AAGCGCCGTTAAAGATCCTGATCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCTTGAT
1 AAGCGCCGCTAAAGATCCTGAGCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAT
26578842 CTATAGCGGCGTTT
66 CTATAGCGGCGTTT
26578856 ATTTATAAAA
Statistics
Matches: 142, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 78 0.55
86 64 0.45
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (85 bp):
AAGCGCCGCTAAAGATCCTGAGCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGAT
CTATAGCGGCGTTTGTAAAA
Found at i:26578828 original size:128 final size:129
Alignment explanation
Indices: 26578612--26578855 Score: 375
Period size: 128 Copynumber: 1.9 Consensus size: 129
26578602 CGAGAAGCGT
*
26578612 CGCTAAAGGTCTTGAGCTATAGCAACGTTTGTGAAAAAAACGCCGCTAAAAGTCGTAATCTATAG
1 CGCTAAAGGTCTTGAGCTATAGCAACGTTTGTGAAAAAAACGCCGCTAAAAGTCCTAATCTATAG
*
26578677 CAGCGTTTTTTGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGTATAAGCTC
66 CAGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGTATAAGCTC
* ** * * *
26578741 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-AAAAAAGCGCCG-TTAAAGATCCTGATCTATA
1 CGCTAAAGGTCTTGAGCTATAGCAACGTTTGTGAAAAAAACGCCGCTAAAAG-TCCTAATCTATA
* *
26578804 GCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
65 GCAGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTT
26578856 ATTTATAAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
127 5 0.05
128 70 0.67
129 29 0.28
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (129 bp):
CGCTAAAGGTCTTGAGCTATAGCAACGTTTGTGAAAAAAACGCCGCTAAAAGTCCTAATCTATAG
CAGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGTATAAGCTC
Found at i:26579065 original size:2 final size:2
Alignment explanation
Indices: 26579060--26579121 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
26579050 ATATGTTATG
26579060 AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26579101 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
26579122 AAGGGTTAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26583207 original size:13 final size:13
Alignment explanation
Indices: 26583189--26583216 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26583179 ATTCTTTATG
26583189 CAAGAAAATAAAA
1 CAAGAAAATAAAA
26583202 CAAGAAAATAAAA
1 CAAGAAAATAAAA
26583215 CA
1 CA
26583217 TACTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.75, C:0.11, G:0.07, T:0.07
Consensus pattern (13 bp):
CAAGAAAATAAAA
Found at i:26585344 original size:21 final size:21
Alignment explanation
Indices: 26585293--26585345 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
26585283 TTTTTAAAAA
26585293 ATTTT-AAAT-ATATTTTATG
1 ATTTTCAAATAATATTTTATG
*
26585312 A-TTTCTAGATAATATTTTATG
1 ATTTTC-AAATAATATTTTATG
26585333 ATTTTCAAATAAT
1 ATTTTCAAATAAT
26585346 CATATCAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 3 0.11
19 1 0.04
20 3 0.11
21 17 0.61
22 4 0.14
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (21 bp):
ATTTTCAAATAATATTTTATG
Found at i:26589941 original size:17 final size:18
Alignment explanation
Indices: 26589919--26589957 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26589909 TGGTGAGCTT
*
26589919 TGGAAA-ACAAGACATTG
1 TGGAAATACAAGACAATG
*
26589936 TGGAAATACAAGTCAATG
1 TGGAAATACAAGACAATG
26589954 TGGA
1 TGGA
26589958 GATTCGTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (18 bp):
TGGAAATACAAGACAATG
Found at i:26594537 original size:51 final size:51
Alignment explanation
Indices: 26594476--26594578 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
26594466 AAATTAAAAG
26594476 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
*
26594527 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAGCATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
26594578 A
1 A
26594579 GTAATTTTAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:26594587 original size:33 final size:33
Alignment explanation
Indices: 26594529--26594634 Score: 96
Period size: 33 Copynumber: 3.2 Consensus size: 33
26594519 AACCAACAAT
* *
26594529 TATACATACACCAACAATGT-TTTTTAGGGT-AA
1 TATACATAAACCAACAA-GTAATTTTAGGGTCAA
26594561 -ATAGCATTAAACCAACAAGTAATTTTA-GGTCAA
1 TATA-CA-TAAACCAACAAGTAATTTTAGGGTCAA
* *
26594594 TTATACATACACCAACAATTAATTTTA-GGTCAA
1 -TATACATAAACCAACAAGTAATTTTAGGGTCAA
26594627 TTATACAT
1 -TATACAT
26594635 GCTTTATAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
31 3 0.05
32 7 0.11
33 49 0.77
34 2 0.03
35 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (33 bp):
TATACATAAACCAACAAGTAATTTTAGGGTCAA
Found at i:26597754 original size:15 final size:16
Alignment explanation
Indices: 26597734--26597763 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26597724 GTATTTAATC
26597734 ATATA-TTTTATTAAA
1 ATATATTTTTATTAAA
26597749 ATATATTTTTATTAA
1 ATATATTTTTATTAA
26597764 TTATAGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATATTTTTATTAAA
Found at i:26597863 original size:14 final size:16
Alignment explanation
Indices: 26597834--26597875 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26597824 TTATTACATT
26597834 ATATATTTTAATTAAA
1 ATATATTTTAATTAAA
*
26597850 ATATA-TTTAATAAAA
1 ATATATTTTAATTAAA
26597865 AT-TATGTTTAA
1 ATATAT-TTTAA
26597876 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATTAAA
Found at i:26598115 original size:155 final size:156
Alignment explanation
Indices: 26597816--26598123 Score: 557
Period size: 155 Copynumber: 2.0 Consensus size: 156
26597806 TATGAACTAT
* *
26597816 TAAGAATTTTATTACATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAATATG
1 TAAGAATATTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAATATG
*
26597881 ATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAATAACAATAACAATAATCATT
66 ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAATAACAATAACAATAATCATT
26597946 TACCAAAACAAA-TTTATGCTAATTA
131 TACCAAAACAAATTTTATGCTAATTA
*
26597971 TAAGAATATTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATG
1 TAAGAATATTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAATATG
26598036 ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCAT
66 ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTT-AATAACAATAACAATAATCAT
26598101 TTACCAAAAC-AATTTTATGCTAA
130 TTACCAAAACAAATTTTATGCTAA
26598124 GGGTATTCTA
Statistics
Matches: 147, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
155 106 0.72
156 41 0.28
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (156 bp):
TAAGAATATTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAATATG
ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAATAACAATAACAATAATCATT
TACCAAAACAAATTTTATGCTAATTA
Found at i:26598240 original size:44 final size:45
Alignment explanation
Indices: 26598175--26598265 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
26598165 ACCTCTATTC
* * *
26598175 CATTCAACCAAACACAAGATT-ACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAACTATTACACCTCTAATCCAATA
***
26598219 CATTCAACCAAACAGTGGATTAACTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAACTATTACACCTCTAATCCAATA
26598264 CA
1 CA
26598266 CCTCTATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAACTATTACACCTCTAATCCAATA
Found at i:26599709 original size:51 final size:51
Alignment explanation
Indices: 26599651--26599758 Score: 216
Period size: 51 Copynumber: 2.1 Consensus size: 51
26599641 GGCCGGAGTA
26599651 TTTGGGTTTGTAACCGGGTTTGGAGATTGGGCTAATTAGGCTTAGGTTAGG
1 TTTGGGTTTGTAACCGGGTTTGGAGATTGGGCTAATTAGGCTTAGGTTAGG
26599702 TTTGGGTTTGTAACCGGGTTTGGAGATTGGGCTAATTAGGCTTAGGTTAGG
1 TTTGGGTTTGTAACCGGGTTTGGAGATTGGGCTAATTAGGCTTAGGTTAGG
26599753 TTTGGG
1 TTTGGG
26599759 GTAGGGTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.17, C:0.07, G:0.38, T:0.38
Consensus pattern (51 bp):
TTTGGGTTTGTAACCGGGTTTGGAGATTGGGCTAATTAGGCTTAGGTTAGG
Found at i:26600577 original size:142 final size:142
Alignment explanation
Indices: 26600313--26600583 Score: 461
Period size: 142 Copynumber: 1.9 Consensus size: 142
26600303 GAGATAAGAC
* *
26600313 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTTCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
* * * *
26600378 TAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTGTAATATTAGGGAGATAAGATT
66 TAATCTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATATCAAGGAGATAAGATT
26600443 TCAAGCTTCAAT
131 TCAAGCTTCAAT
26600455 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
* * *
26600520 TAATCTCAGAGAGATTGGATTACTAGCTTCAATCTGTTCCGCTGTAATCTCAAGGAGATAAGAT
66 TAATCTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATATCAAGGAGATAAGAT
26600584 CTGAAATTCT
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 120 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
TAATCTCAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATATCAAGGAGATAAGATT
TCAAGCTTCAAT
Found at i:26600709 original size:44 final size:44
Alignment explanation
Indices: 26600681--26600957 Score: 147
Period size: 44 Copynumber: 6.3 Consensus size: 44
26600671 TCTTTACTTT
*
26600681 AATCTGCTCCGCTGTAATATCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTACTAGCTTC
* *
26600725 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGAT-T-ACTA-GCTTC
** ** * * * * *
26600771 GGTCTATTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGC
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTACTAGCTTC
* * ** * * * *
26600812 GATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCCGCTGTAA-TATCAGGGAGATAAGAT--TACTAGCTTC
** * * * *
26600856 AATCCACTCCACTGTAATCTCAAGGAGATAGGATTA-TCAGCTTC
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTACT-AGCTTC
* ** *
26600900 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGTCACCTTC
1 AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTACT-AGCTTC
*
26600945 GATCTGCTCCGCT
1 AATCTGCTCCGCT
26600958 ACTGCTTAGG
Statistics
Matches: 180, Mismatches: 38, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
41 29 0.16
42 3 0.02
43 2 0.01
44 93 0.52
45 21 0.12
46 32 0.18
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCGCTGTAATATCAGGGAGATAAGATTACTAGCTTC
Found at i:26600754 original size:175 final size:175
Alignment explanation
Indices: 26600455--26600933 Score: 798
Period size: 175 Copynumber: 2.7 Consensus size: 175
26600445 AAGCTTCAAT
26600455 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
* * * *
26600520 TAATCTCAGAGAGATTGGATTACTAGCTTCAATCTGTTCCGCTGTAATCTCAAGGAGATAAGATC
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
26600585 TGAAATTCTTCGGTCTATTCCACTCTAATCCCAGGGAGATAAGAC
131 TGAAATTCTTCGGTCTATTCCACTCTAATCCCAGGGAGATAAGAC
* * * * *
26600630 CTGACGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATTCTTTACTTTAATCTGCTCCGCTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
* *
26600695 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATATCAGGGAGATAAGATC
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
* *
26600760 TGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGAC
131 TGAAATTCTTCGGTCTATTCCACTCTAATCCCAGGGAGATAAGAC
* *
26600805 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
*
26600870 TAATCTCAAGGAGATAGGATTA-TCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
66 TAATCTCAGGGAGATAGGATTACT-AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
26600934 TTGTCACCTT
Statistics
Matches: 280, Mismatches: 23, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
174 1 0.00
175 279 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (175 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
TGAAATTCTTCGGTCTATTCCACTCTAATCCCAGGGAGATAAGAC
Found at i:26600969 original size:44 final size:44
Alignment explanation
Indices: 26600921--26601124 Score: 196
Period size: 44 Copynumber: 4.4 Consensus size: 44
26600911 CTGTAATCTC
* *
26600921 AGGGAGATAAGATTTGTCACCTTCGATCTGCTCCGCTACTGCTT
1 AGGGAGACAAGATCTGTCACCTTCGATCTGCTCCGCTACTGCTT
*
26600965 AGGGAGACCAGATCTGTCACCTTCGATCTGCTCCGCTACTGCTT
1 AGGGAGACAAGATCTGTCACCTTCGATCTGCTCCGCTACTGCTT
* *
26601009 AGGGAGACAAGATCTATC-CCTAAGATCTGTCACCTTCGATCTGCTCCGCTACTGCTT
1 AGGGAGACAAGATCTGTCACCT----TC-G--ATC-T-G--CT-C--CGCTACTGCTT
* *
26601066 AGGGAGATAAGATCTGTCACATTC-ATCTGCTCCGCTACTGCTT
1 AGGGAGACAAGATCTGTCACCTTCGATCTGCTCCGCTACTGCTT
*
26601109 AAGGAGACAAGATCTG
1 AGGGAGACAAGATCTG
26601125 CAATTTCCAA
Statistics
Matches: 133, Mismatches: 12, Indels: 31
0.76 0.07 0.18
Matches are distributed among these distances:
43 28 0.21
44 57 0.43
45 1 0.01
46 2 0.02
47 2 0.02
48 2 0.02
49 1 0.01
50 4 0.03
51 1 0.01
52 1 0.01
54 4 0.03
55 1 0.01
57 27 0.20
58 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (44 bp):
AGGGAGACAAGATCTGTCACCTTCGATCTGCTCCGCTACTGCTT
Found at i:26601102 original size:43 final size:44
Alignment explanation
Indices: 26601029--26601124 Score: 158
Period size: 43 Copynumber: 2.2 Consensus size: 44
26601019 GATCTATCCC
* *
26601029 TAAGATCTGTCACCTTCGATCTGCTCCGCTACTGCTTAGGGAGA
1 TAAGATCTGTCACATTCGATCTGCTCCGCTACTGCTTAAGGAGA
26601073 TAAGATCTGTCACATTC-ATCTGCTCCGCTACTGCTTAAGGAGA
1 TAAGATCTGTCACATTCGATCTGCTCCGCTACTGCTTAAGGAGA
*
26601116 CAAGATCTG
1 TAAGATCTG
26601125 CAATTTCCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 33 0.67
44 16 0.33
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (44 bp):
TAAGATCTGTCACATTCGATCTGCTCCGCTACTGCTTAAGGAGA
Found at i:26602432 original size:7 final size:7
Alignment explanation
Indices: 26602420--26602457 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
26602410 CCGTCGTCAC
26602420 TTTTCAT
1 TTTTCAT
26602427 TTTTCAT
1 TTTTCAT
26602434 TTTTCA-
1 TTTTCAT
*
26602440 TTGTCAT
1 TTTTCAT
26602447 TTTTCAT
1 TTTTCAT
26602454 TTTT
1 TTTT
26602458 TTTGAAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:26602446 original size:13 final size:13
Alignment explanation
Indices: 26602415--26602454 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
26602405 CCTCACCGTC
*
26602415 GTCACTTTTCATTT
1 GTCATTTTTCA-TT
*
26602429 TTCATTTTTCATT
1 GTCATTTTTCATT
26602442 GTCATTTTTCATT
1 GTCATTTTTCATT
26602455 TTTTTTGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.15, C:0.17, G:0.05, T:0.62
Consensus pattern (13 bp):
GTCATTTTTCATT
Found at i:26609247 original size:28 final size:27
Alignment explanation
Indices: 26609205--26609257 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
26609195 TTTAAATAAT
*
26609205 AAAAATATTTGTAAT-TTTAATTAAATG
1 AAAAATATTTATAATATTT-ATTAAATG
26609232 AAAAAGTATTTATAATATTTATTAAA
1 AAAAA-TATTTATAATATTTATTAAA
26609258 ATTAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.22
28 15 0.65
29 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
AAAAATATTTATAATATTTATTAAATG
Found at i:26616155 original size:51 final size:49
Alignment explanation
Indices: 26616089--26616185 Score: 124
Period size: 49 Copynumber: 1.9 Consensus size: 49
26616079 CATTTTATCT
* * *
26616089 TTCTATTAACATTCTTCAATTTTTTTTATCTAAAT-TTTTTTGTCCAAAAGA
1 TTCTACTAACATTCTT-AA-ATTTTTTATATAAATATTTTTTG-CCAAAAGA
*
26616140 TTCTACTAACGTTCTTAAATTTTTTATATAAATATTTTTTGCCAAA
1 TTCTACTAACATTCTTAAATTTTTTATATAAATATTTTTTGCCAAA
26616186 GAATTATACC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 18 0.44
50 9 0.22
51 14 0.34
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (49 bp):
TTCTACTAACATTCTTAAATTTTTTATATAAATATTTTTTGCCAAAAGA
Found at i:26616932 original size:47 final size:47
Alignment explanation
Indices: 26616860--26616950 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
26616850 ATACATTGAG
*
26616860 TTTCATTTAGGCTTCCCTTGAATGCAATTGGACTTCAGAAAGTTAGC
1 TTTCATGTAGGCTTCCCTTGAATGCAATTGGACTTCAGAAAGTTAGC
* * *
26616907 TTTCATGTAGGCTTTCCTTGGATGCAATTGGACTTCAGTAAGTT
1 TTTCATGTAGGCTTCCCTTGAATGCAATTGGACTTCAGAAAGTT
26616951 GGCTCTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (47 bp):
TTTCATGTAGGCTTCCCTTGAATGCAATTGGACTTCAGAAAGTTAGC
Found at i:26621097 original size:18 final size:18
Alignment explanation
Indices: 26621045--26621098 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
26621035 TGTATTATAA
* * *
26621045 TATTAATTAATAAAACAC
1 TATTACTTAATAAAATAT
*
26621063 TATTACTTATTAAAATAT
1 TATTACTTAATAAAATAT
*
26621081 TATTACTTAATATAATAT
1 TATTACTTAATAAAATAT
26621099 AATTTAAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTACTTAATAAAATAT
Found at i:26623380 original size:365 final size:366
Alignment explanation
Indices: 26622704--26623402 Score: 1211
Period size: 365 Copynumber: 1.9 Consensus size: 366
26622694 TTTTCTATCA
26622704 TTAGCTGAGTTCGCCTACAATAACAATTTTCAGTCTAGCATCCAGATGACACCTTACGAGGCTCT
1 TTAGCTGAGTTCGCCTACAATAACAATTTTCAGTCTAGCATCCAGATGACACCTTACGA----C-
*
26622769 GTATGGTCATAAGTATCACACTCAACTGTGTTAGATTGAGTTGGGTGAGTGATAGGTTTTGGGTC
61 GTATGGTCATAAGTATCACACTCAACTGTGTTAGACTGAGTTGGGTGAGTGATAGGTTTTGGGTC
*
26622834 CTGAGTTGGTTTCTGAGACCGAGGACAAAGTTAGACTGACACGGGATCGTCTTAAAGCGGCTTTT
126 CTGAGTTGGTTTCAGAGACCGAGGACAAAGTTAGACTGACACGGGATCGTCTTAAAGCGGCTTTT
26622899 GATAGATAGAAGTCCTATGCAGATCTGAAAAGGATGGATATCGAGTACTCTATGGGTGACTTTGT
191 GATAGATAGAAGTCCTATGCAGATCTGAAAAGGATGGATATCGAGTACTCTATGGGTGACTTTGT
*
26622964 CTTTCTTAAGGCATCTCCGTGGAAAAAGGTTCTGCGGTTCGGAAGTAAAGGCAAGTTGAACCCTA
256 CTTTCTTAAGGCATCTCCGTGGAAAAAGGTTCTGCGGTTCAGAAGTAAAGGCAAGTTGAACCCTA
26623029 GGTTCATTACACCTACAAAGTTAACTGTGTTAGACTGAGGACAAAG
321 GGTTCATTACACCTACAAAGTTAACTGTGTTAGACTGAGGACAAAG
* *
26623075 TTAGCTGAGTTTGTCTACAATAACAATTTTCAGTCTAGCATCCAGATGACACCTTACGA-GTATG
1 TTAGCTGAGTTCGCCTACAATAACAATTTTCAGTCTAGCATCCAGATGACACCTTACGACGTATG
* * *
26623139 GTCGTAAGTGTCACACTCAACTGTGTTAGACTGAGTTGGGTGAGTGATGGGTTTTGGGTCCTGAG
66 GTCATAAGTATCACACTCAACTGTGTTAGACTGAGTTGGGTGAGTGATAGGTTTTGGGTCCTGAG
* * *
26623204 TTGGTTTCAGAGACTGAGGACAAAGTTAGATTGACACGGGATCGTCTTAAAGTGGCTTTTGATAG
131 TTGGTTTCAGAGACCGAGGACAAAGTTAGACTGACACGGGATCGTCTTAAAGCGGCTTTTGATAG
*
26623269 ATAGAAGTCCTATGCAGATCTGAAAAGGATGGATATTGAGTACTCTATGGGTGACTTTGTCTTTC
196 ATAGAAGTCCTATGCAGATCTGAAAAGGATGGATATCGAGTACTCTATGGGTGACTTTGTCTTTC
* * *
26623334 TTAAGGTATCTCCGTGGAATAAGGTTCTGCGGTTCAGACGTAAAGGCAAGTTGAACCCTAGGTTC
261 TTAAGGCATCTCCGTGGAAAAAGGTTCTGCGGTTCAGAAGTAAAGGCAAGTTGAACCCTAGGTTC
26623399 ATTA
326 ATTA
26623403 GGTTGTATCG
Statistics
Matches: 313, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
365 256 0.82
371 57 0.18
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (366 bp):
TTAGCTGAGTTCGCCTACAATAACAATTTTCAGTCTAGCATCCAGATGACACCTTACGACGTATG
GTCATAAGTATCACACTCAACTGTGTTAGACTGAGTTGGGTGAGTGATAGGTTTTGGGTCCTGAG
TTGGTTTCAGAGACCGAGGACAAAGTTAGACTGACACGGGATCGTCTTAAAGCGGCTTTTGATAG
ATAGAAGTCCTATGCAGATCTGAAAAGGATGGATATCGAGTACTCTATGGGTGACTTTGTCTTTC
TTAAGGCATCTCCGTGGAAAAAGGTTCTGCGGTTCAGAAGTAAAGGCAAGTTGAACCCTAGGTTC
ATTACACCTACAAAGTTAACTGTGTTAGACTGAGGACAAAG
Found at i:26624201 original size:16 final size:17
Alignment explanation
Indices: 26624167--26624205 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
26624157 ATATTAAGGA
*
26624167 TATTTTATTGAAATATT
1 TATTTTATTAAAATATT
*
26624184 TATTTT-TTAAAATTTT
1 TATTTTATTAAAATATT
26624200 TATTTT
1 TATTTT
26624206 CTTTTCTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTTATTAAAATATT
Found at i:26627913 original size:16 final size:16
Alignment explanation
Indices: 26627892--26627924 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26627882 ACACTTACGC
26627892 TTCCCAAATTGTCAGA
1 TTCCCAAATTGTCAGA
*
26627908 TTCCCAACTTGTCAGA
1 TTCCCAAATTGTCAGA
26627924 T
1 T
26627925 CTGAGTCGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (16 bp):
TTCCCAAATTGTCAGA
Found at i:26636710 original size:5 final size:5
Alignment explanation
Indices: 26636700--26636737 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
26636690 CTAAATATAA
26636700 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
26636738 AGAAAAAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:26636738 original size:15 final size:15
Alignment explanation
Indices: 26636692--26636743 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
26636682 AATAATTACT
26636692 AAATATAAA-AAAT-A
1 AAATA-AAATAAATAA
26636706 AAATAAAATAAA-ATA
1 AAATAAAATAAATA-A
26636721 AAATAAAATAAATAA
1 AAATAAAATAAATAA
*
26636736 AAAGAAAA
1 AAATAAAA
26636744 AGCAAAGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 3 0.09
14 8 0.24
15 21 0.64
16 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (15 bp):
AAATAAAATAAATAA
Found at i:26639494 original size:13 final size:13
Alignment explanation
Indices: 26639476--26639500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26639466 ATTTGCATCG
26639476 TATTACATCACTA
1 TATTACATCACTA
26639489 TATTACATCACT
1 TATTACATCACT
26639501 GGATTTGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTACATCACTA
Found at i:26645421 original size:27 final size:27
Alignment explanation
Indices: 26645374--26646023 Score: 727
Period size: 27 Copynumber: 24.3 Consensus size: 27
26645364 GGGTATAACA
26645374 GTCATTTTA-CCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
26645400 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26645427 GTCATTCTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26645454 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
26645481 GTCATTTTACCCTATGGAGGTCTTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
26645508 GTCATTTTACCCTATGAGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26645535 GTTATTTTACCCTAT-GGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
26645561 GTAATTTTACCCTATGGGGGTATTTTT
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26645588 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26645615 GTCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
26645642 GTTATTTTACCCTGTAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * ** *
26645669 GTGATTTTACCCTGTGGGGACATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26645696 GTCATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
26645723 GTCATTCTACCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26645750 GTCATTTTACCCAATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * ** *
26645777 GTTATTTTTCCCTGTGGGGACATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26645804 GTCATTTTACCCTATGAGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
26645831 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
26645858 GTCATTTTACCCTAT-GAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
26645884 GTCATTCTACCCTAT-AGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
26645910 GTTATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
26645936 GTCATTTTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
26645963 GTCATTTTACCCTATGGGGGTATTCCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
26645990 ATCATTTTACCCTAAT-AGGGTATTTCA
1 GTCATTTTACCCT-ATGGGGGTATTTCG
26646017 GTCATTT
1 GTCATTT
26646024 ATCTTATGGG
Statistics
Matches: 530, Mismatches: 90, Indels: 7
0.85 0.14 0.01
Matches are distributed among these distances:
26 97 0.18
27 431 0.81
28 2 0.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:26649396 original size:23 final size:25
Alignment explanation
Indices: 26649340--26649392 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
26649330 TTTAAATGGA
*
26649340 TGTGTTTGGAGGGTATATTTGGTTG
1 TGTGTTTGGAGGCTATATTTGGTTG
*
26649365 TGTGTTTGGAGGCTATGTTTGGTTG
1 TGTGTTTGGAGGCTATATTTGGTTG
26649390 TGT
1 TGT
26649393 TTGGTGAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.09, C:0.02, G:0.40, T:0.49
Consensus pattern (25 bp):
TGTGTTTGGAGGCTATATTTGGTTG
Found at i:26652595 original size:41 final size:41
Alignment explanation
Indices: 26652537--26652630 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
26652527 ACCGGCTTTT
* * *
26652537 AGCCTGCTAGACTTATAGTCCGAA-ACGTATCACCAGCATTA
1 AGCCTGCTAGACGTATAGTCCGAATA-ATATCACCAGCATCA
* * *
26652578 AGCCTACTAGACGTATAGTCTGAATAATTTCACCAGCATCA
1 AGCCTGCTAGACGTATAGTCCGAATAATATCACCAGCATCA
26652619 AGCCTGCTAGAC
1 AGCCTGCTAGAC
26652631 CTAAAGTCTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAATAATATCACCAGCATCA
Found at i:26652639 original size:41 final size:41
Alignment explanation
Indices: 26652566--26652651 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
26652556 CCGAAACGTA
* * *
26652566 TCACCAGCATTAAGCCTACTAGACGTATAGTCTGAATAATT
1 TCACCAGCATCAAGCCTACTAGACCTAAAGTCTGAATAATT
* *
26652607 TCACCAGCATCAAGCCTGCTAGACCTAAAGTCTGAATTATT
1 TCACCAGCATCAAGCCTACTAGACCTAAAGTCTGAATAATT
26652648 TCAC
1 TCAC
26652652 TGGCAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (41 bp):
TCACCAGCATCAAGCCTACTAGACCTAAAGTCTGAATAATT
Found at i:26660260 original size:41 final size:41
Alignment explanation
Indices: 26660210--26660300 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
26660200 CCGAAACGTA
* * *
26660210 TCACTGGCATTAAGCCTACTAGACGTATAGTCTGAATAATT
1 TCACTGGCATCAAGCCTACTAGACCTAAAGTCTGAATAATT
* * *
26660251 TCACCGGCATCAAGCCTGCTAGACCTAAAGTCTGAATTATT
1 TCACTGGCATCAAGCCTACTAGACCTAAAGTCTGAATAATT
26660292 TCACTGGCA
1 TCACTGGCA
26660301 ATAAATCCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (41 bp):
TCACTGGCATCAAGCCTACTAGACCTAAAGTCTGAATAATT
Found at i:26670227 original size:3 final size:3
Alignment explanation
Indices: 26670219--26670258 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
26670209 ATAACAAATG
26670219 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
26670259 ACCATCAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:26672096 original size:27 final size:26
Alignment explanation
Indices: 26672039--26672108 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 26
26672029 TTGTTGCAAC
*
26672039 AGAATGAGAGGCTGAGATTGGAGTTAA
1 AGAATGAGAAGCTGAGATTGGAG-TAA
26672066 AGAATGAGAAGCTGAGATT-G-G---
1 AGAATGAGAAGCTGAGATTGGAGTAA
26672087 AGAATGAGAAGCTGAGATTGGA
1 AGAATGAGAAGCTGAGATTGGA
26672109 ATTAGAGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 19 0.47
22 1 0.03
25 1 0.03
26 1 0.03
27 18 0.45
ACGTcount: A:0.39, C:0.04, G:0.37, T:0.20
Consensus pattern (26 bp):
AGAATGAGAAGCTGAGATTGGAGTAA
Found at i:26672116 original size:27 final size:26
Alignment explanation
Indices: 26672039--26672117 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 26
26672029 TTGTTGCAAC
* *
26672039 AGAATGAGAGGCTGAGATTGGAGTTAA
1 AGAATGAGAAGCTGAGATTGGA-TTAG
26672066 AGAATGAGAAGCTGAGATT-G----G
1 AGAATGAGAAGCTGAGATTGGATTAG
26672087 AGAATGAGAAGCTGAGATTGGAATTAG
1 AGAATGAGAAGCTGAGATTGG-ATTAG
26672114 AGAA
1 AGAA
26672118 GCTCAAAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
21 19 0.43
22 1 0.02
26 1 0.02
27 23 0.52
ACGTcount: A:0.41, C:0.04, G:0.35, T:0.20
Consensus pattern (26 bp):
AGAATGAGAAGCTGAGATTGGATTAG
Found at i:26674121 original size:18 final size:19
Alignment explanation
Indices: 26674075--26674123 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
26674065 TTTTTACTTG
**
26674075 AAAAGACTAAAATTAATTCA
1 AAAAGA-TAAAAGAAATTCA
*
26674095 AAAAAATAAAAGAAATT-A
1 AAAAGATAAAAGAAATTCA
26674113 AAAAGATAAAA
1 AAAAGATAAAA
26674124 TGAGTGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 11 0.44
19 9 0.36
20 5 0.20
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.18
Consensus pattern (19 bp):
AAAAGATAAAAGAAATTCA
Found at i:26675984 original size:15 final size:14
Alignment explanation
Indices: 26675963--26675998 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
26675953 ATAATCCTTA
*
26675963 ATAATTATCTTAAT
1 ATAATTATCCTAAT
26675977 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
26675992 ATAATTA
1 ATAATTA
26675999 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:26676570 original size:5 final size:6
Alignment explanation
Indices: 26676552--26676577 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
26676542 CCAAATTATA
26676552 TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TT
26676578 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:26677601 original size:13 final size:14
Alignment explanation
Indices: 26677585--26677613 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26677575 GGTGGCGATC
26677585 AATGGT-GAGGGAG
1 AATGGTGGAGGGAG
26677598 AATGGTGGAGGGAG
1 AATGGTGGAGGGAG
26677612 AA
1 AA
26677614 GTGGCAGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.52, T:0.14
Consensus pattern (14 bp):
AATGGTGGAGGGAG
Found at i:26677735 original size:22 final size:22
Alignment explanation
Indices: 26677718--26677760 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
26677708 TGCAGGGATA
26677718 AGGGT-GGTTGGCTACAGGAAT
1 AGGGTAGGTTGGCTACAGGAAT
*
26677739 AGGGTAGTTTGGCTACAGGAAT
1 AGGGTAGGTTGGCTACAGGAAT
26677761 TCTAGGCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.26, C:0.09, G:0.40, T:0.26
Consensus pattern (22 bp):
AGGGTAGGTTGGCTACAGGAAT
Found at i:26684375 original size:15 final size:14
Alignment explanation
Indices: 26684354--26684389 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
26684344 ATAATCCTTA
*
26684354 ATAATTATCTTAAT
1 ATAATTATCCTAAT
26684368 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
26684383 ATAATTA
1 ATAATTA
26684390 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:26688849 original size:2 final size:2
Alignment explanation
Indices: 26688842--26688892 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
26688832 TGTTATAATG
26688842 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26688884 TA TA TA TA T
1 TA TA TA TA T
26688893 GCCACAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26688914 original size:15 final size:15
Alignment explanation
Indices: 26688894--26688923 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26688884 TATATATATG
26688894 CCACAATAATAAATA
1 CCACAATAATAAATA
26688909 CCACAATAATAAATA
1 CCACAATAATAAATA
26688924 GAACAATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (15 bp):
CCACAATAATAAATA
Found at i:26688929 original size:15 final size:15
Alignment explanation
Indices: 26688896--26688930 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26688886 TATATATGCC
*
26688896 ACAATAATAAATACC
1 ACAATAATAAATACA
*
26688911 ACAATAATAAATAGA
1 ACAATAATAAATACA
26688926 ACAAT
1 ACAAT
26688931 GGCATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:26689332 original size:18 final size:18
Alignment explanation
Indices: 26689292--26689335 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
26689282 GTATAAATAG
* *
26689292 AAAAATATTCATATATAG
1 AAAAATATTCATATAAAA
26689310 AAAAATATTCAT-TAAAA
1 AAAAATATTCATATAAAA
26689327 ATAAAATAT
1 A-AAAATAT
26689336 ATATATATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATATTCATATAAAA
Found at i:26690515 original size:13 final size:13
Alignment explanation
Indices: 26690483--26690509 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26690473 GAGTTTCTGA
26690483 CATTGTTTTGGGC
1 CATTGTTTTGGGC
26690496 CATTGTTTTGGGC
1 CATTGTTTTGGGC
26690509 C
1 C
26690510 TCTGTTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (13 bp):
CATTGTTTTGGGC
Done.