Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 10 of 240
Found at i:3799859 original size:15 final size:17
Alignment explanation
Indices: 3799838--3799878 Score: 68
Period size: 15 Copynumber: 2.5 Consensus size: 17
3799828 AATTTTTTTA
3799838 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
3799854 -AAATTATAAAAATAAT
1 AAAATTATAAAAATAAT
3799870 AAAATTATA
1 AAAATTATA
3799879 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.57
16 2 0.09
17 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:3806339 original size:15 final size:16
Alignment explanation
Indices: 3806319--3806355 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3806309 ACAAAATCAA
3806319 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
3806334 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
3806350 ATAAAA
1 ATAAAA
3806356 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:3806547 original size:60 final size:60
Alignment explanation
Indices: 3806473--3806594 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
3806463 ATACTAAACT
* * * * *
3806473 AAACACAACAATTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
3806533 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
3806593 AA
1 AA
3806595 TATTCATACA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:3806611 original size:19 final size:19
Alignment explanation
Indices: 3806587--3806924 Score: 170
Period size: 19 Copynumber: 17.3 Consensus size: 19
3806577 ATTATAAAAT
3806587 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
3806606 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
* *
3806628 ATATTATAATATCCATACAA
1 A-ATTACAATATTCATACAA
3806648 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
3806670 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
*
3806690 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* * *
3806706 TATTCATACAAAATAC-TAATCAA
1 -AAT--TACAATATTCAT-A-CAA
**
3806729 AA--AC--TATAAATACAA
1 AATTACAATATTCATACAA
*
3806744 AATT---A-ATT-ATAAAA
1 AATTACAATATTCATACAA
*
3806758 TAATTACAATATTCATAAAA
1 -AATTACAATATTCATACAA
3806778 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
3806799 AATTACACTATTCATACAA
1 AATTACAATATTCATACAA
* * *
3806818 AA-TACTA-ATCCAAAACTATA
1 AATTACAATATTC-ATAC-A-A
*
3806838 AA-TACAAAATGAATT-ATAAAA
1 AATTAC--AAT--ATTCATACAA
3806859 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
*
3806879 AATTATAATATTCATACAAA
1 AATTACAATATTCATAC-AA
*
3806899 AAGTTACAATATACATACAA
1 AA-TTACAATATTCATACAA
3806919 AATTAC
1 AATTAC
3806925 CCATTGGCGC
Statistics
Matches: 252, Mismatches: 27, Indels: 80
0.70 0.08 0.22
Matches are distributed among these distances:
14 5 0.02
15 11 0.04
16 9 0.04
17 6 0.02
18 11 0.04
19 90 0.36
20 30 0.12
21 40 0.16
22 10 0.04
23 38 0.15
25 2 0.01
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:3806645 original size:42 final size:42
Alignment explanation
Indices: 3806588--3806820 Score: 212
Period size: 42 Copynumber: 5.5 Consensus size: 42
3806578 TTATAAAATA
3806588 ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
1 ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
* *
3806630 ATTATAATATCCATACAAAATTACAATATTCATACAAACAAT
1 ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
* *
3806672 ATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAA-
1 ATTACAATATTCATACAAAATTACAATATT-C-ATA--CAAACAAT
* * * * * *
3806717 AATACTAATCA--AAAACTATAAA-TACAAAATTAATTA-TAA-AAT
1 ATTAC-AAT-ATTCATAC-A-AAATTACAATATTCA-TACAAACAAT
*
3806759 AATTACAATATTCATAAAAAATTACAATATTCATACAAA-AA-
1 -ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
*
3806800 ATTACACTATTCATACAAAAT
1 ATTACAATATTCATACAAAAT
3806821 ACTAATCCAA
Statistics
Matches: 155, Mismatches: 21, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
40 19 0.12
41 8 0.05
42 85 0.55
43 7 0.05
44 4 0.03
45 9 0.06
46 19 0.12
47 4 0.03
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (42 bp):
ATTACAATATTCATACAAAATTACAATATTCATACAAACAAT
Found at i:3806705 original size:27 final size:27
Alignment explanation
Indices: 3806643--3806719 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
3806633 ATAATATCCA
3806643 TACAAAATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
3806667 -ACAATATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
3806693 TACAAAATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
3806720 ACTAATCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 20 0.43
25 2 0.04
27 25 0.53
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.30
Consensus pattern (27 bp):
TACAAAATTACAATATTCATACAAAAT
Found at i:3806816 original size:101 final size:101
Alignment explanation
Indices: 3806648--3806921 Score: 395
Period size: 101 Copynumber: 2.6 Consensus size: 101
3806638 ATCCATACAA
3806648 AATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATATTCAT
1 AATTACAATATTCAT--AAA-AA-ATTACAATATTCATAC---A--A-AAAATTACAATATTCAT
*
3806713 ACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
56 ACAAAATACTAATCAAAAACTATAAATACAAAATGAATTATAAAAT
*
3806759 AATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTACACTATTCATACAAAATACT
1 AATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAATACT
*
3806824 AATCCAAAACTATAAATACAAAATGAATTATAAAAT
66 AATCAAAAACTATAAATACAAAATGAATTATAAAAT
* * * *
3806860 AATTACAATATTCATACAAAATTATAATATTCATACAAAAAGTTACAATATACATACAAAAT
1 AATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAAT
3806922 TACCCATTGG
Statistics
Matches: 155, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
101 117 0.75
102 1 0.01
104 1 0.01
107 16 0.10
108 2 0.01
109 3 0.02
111 15 0.10
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.30
Consensus pattern (101 bp):
AATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAATACT
AATCAAAAACTATAAATACAAAATGAATTATAAAAT
Found at i:3806970 original size:27 final size:26
Alignment explanation
Indices: 3806929--3807001 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 26
3806919 AATTACCCAT
3806929 TGGCGCCTTCCTATGAGGCACTTTTAA
1 TGGCGCC-TCCTATGAGGCACTTTTAA
3806956 TGGCGCCTCCTTATGAGGCACTTTTAA
1 TGGCGCCTCC-TATGAGGCACTTTTAA
*
3806983 TGGTGCCTCCCTATGAGGC
1 TGGCGCCT-CCTATGAGGC
3807002 GCCACCCGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 3 0.07
27 38 0.88
28 2 0.05
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.32
Consensus pattern (26 bp):
TGGCGCCTCCTATGAGGCACTTTTAA
Found at i:3807634 original size:28 final size:29
Alignment explanation
Indices: 3807594--3807654 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
3807584 GGTTTAATAT
*
3807594 AAAAAATTAAAATT-ATTTTATAAAATTC
1 AAAAAATTAAAATTAATTTTATAAAAGTC
* *
3807622 AAAAAATTTAAATTAATTTTATACAAGTC
1 AAAAAATTAAAATTAATTTTATAAAAGTC
3807651 AAAA
1 AAAA
3807655 TTGTGATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAAATTAAAATTAATTTTATAAAAGTC
Found at i:3808854 original size:18 final size:16
Alignment explanation
Indices: 3808808--3808855 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
3808798 TTTTTCTAGA
*
3808808 TTATATATATTTGAAT
1 TTATATATATTTAAAT
* *
3808824 TTTTATATTTTTAAAT
1 TTATATATATTTAAAT
3808840 GTGTATATATATTTAA
1 -T-TATATATATTTAA
3808856 TAAAAGATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 13 0.52
17 1 0.04
18 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATATATATTTAAAT
Found at i:3817532 original size:16 final size:16
Alignment explanation
Indices: 3817495--3817534 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
3817485 TTAATAAAAT
* *
3817495 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
3817511 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
3817527 TAAAATTA
1 TAAAATTA
3817535 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:3817617 original size:68 final size:68
Alignment explanation
Indices: 3817541--3817715 Score: 332
Period size: 68 Copynumber: 2.6 Consensus size: 68
3817531 ATTATCAAAT
3817541 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAA
1 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAA
3817606 TTG
66 TTG
3817609 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAA
1 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAA
3817674 TTG
66 TTG
* *
3817677 TATTCATTGTTGTAACAAAATCTAACATTTGATTAGTAA
1 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAA
3817716 CACTAGTCAA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 105 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (68 bp):
TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAA
TTG
Found at i:3817624 original size:9 final size:9
Alignment explanation
Indices: 3817591--3817618 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3817581 TTTATCAAAT
3817591 TATTAATTG
1 TATTAATTG
3817600 TATTAATTG
1 TATTAATTG
3817609 TATTAATTG
1 TATTAATTG
3817618 T
1 T
3817619 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:3817788 original size:22 final size:24
Alignment explanation
Indices: 3817748--3817791 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3817738 AAATAAACTT
3817748 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
3817772 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
3817792 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:3821155 original size:11 final size:11
Alignment explanation
Indices: 3821139--3821169 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3821129 TATATATATT
3821139 TAAAAATTATA
1 TAAAAATTATA
*
3821150 TAAAAATAATA
1 TAAAAATTATA
3821161 TAAAAATTA
1 TAAAAATTA
3821170 ATACGCCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:3823527 original size:41 final size:41
Alignment explanation
Indices: 3823468--3823610 Score: 196
Period size: 41 Copynumber: 3.5 Consensus size: 41
3823458 AGATGATTCA
* *
3823468 GACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATATTTCG
1 GACTTTACGTCTAACAGGCTTGATGCCAGTGAAATATTTCG
* * * *
3823509 GGCTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTCA
1 GACTTTACGTCTAACAGGCTTGATGCCAGTGAAATATTTCG
** * *
3823550 GACTTTATATCCAACAGGCTTGATGCCAGTGAAATATTTTG
1 GACTTTACGTCTAACAGGCTTGATGCCAGTGAAATATTTCG
3823591 GACTTTACGTCTAACAGGCT
1 GACTTTACGTCTAACAGGCT
3823611 AATTGCCGAT
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (41 bp):
GACTTTACGTCTAACAGGCTTGATGCCAGTGAAATATTTCG
Found at i:3823650 original size:82 final size:83
Alignment explanation
Indices: 3823460--3823651 Score: 187
Period size: 82 Copynumber: 2.3 Consensus size: 83
3823450 TGAAAGTAAG
* * * * * *
3823460 ATGATTCAGACTTTA-CGTCTAGCAGGCTTGATGCCGGTGAAATATTTCGGGCTTTACGTCTAGC
1 ATGAATCAGACTTTATAGCCTAGCAGGCTTGATGCCAGTGAAATATTTCGGACTTTACGTCTAAC
*
3823524 AGGCTTGATGCCAGTGAA
66 AGGCTTAATGCCAGTGAA
** * * *
3823542 ATGTTTCAGACTTTATATCC-AACAGGCTTGATGCCAGTGAAATATTTTGGACTTTACGTCTAAC
1 ATGAATCAGACTTTATAGCCTAGCAGGCTTGATGCCAGTGAAATATTTCGGACTTTACGTCTAAC
*
3823606 AGGC-TAATTGCC-GATGTA
66 AGGCTTAA-TGCCAG-TGAA
* **
3823624 CTGAATCAGGTTTTA-AGCCTAGCAGGCT
1 ATGAATCAGACTTTATAGCCTAGCAGGCT
3823652 AAGCGCCGGT
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
81 6 0.07
82 81 0.92
83 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (83 bp):
ATGAATCAGACTTTATAGCCTAGCAGGCTTGATGCCAGTGAAATATTTCGGACTTTACGTCTAAC
AGGCTTAATGCCAGTGAA
Found at i:3824133 original size:71 final size:70
Alignment explanation
Indices: 3824058--3824214 Score: 190
Period size: 71 Copynumber: 2.2 Consensus size: 70
3824048 GATAAATACA
* * *
3824058 TATATACATTTGGTTATAATATTTGTTAAG-TATATGTATATATATGCATTCGGCTATTCATGTT
1 TATATACATTTGGTTATAATATCTGTTAAGATATATGTATATA-A-GCATTCGACTATTCATATT
3824122 CAAAGTG
64 CAAAGTG
*** *
3824129 TATATACATTTGGAGCTAATATCTGTTAAGCATATATGTATATAAGCATTCGACTATTCATATTT
1 TATATACATTTGGTTATAATATCTGTTAAG-ATATATGTATATAAGCATTCGACTATTCATATTC
*
3824194 ATAGTG
65 AAAGTG
* *
3824200 AATATACATTCGGTT
1 TATATACATTTGGTT
3824215 TTAAGAGTTG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
71 59 0.82
72 1 0.01
73 12 0.17
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (70 bp):
TATATACATTTGGTTATAATATCTGTTAAGATATATGTATATAAGCATTCGACTATTCATATTCA
AAGTG
Found at i:3829338 original size:30 final size:31
Alignment explanation
Indices: 3829263--3829345 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
3829253 TTAGACTCCC
* * * *
3829263 AAAATTTTAAAAATGTTAGTTAA-ACTTTTA
1 AAAATTTTGAAAATTTTAATTAATTCTTTTA
* *
3829293 AAATTTTTGAAAATTTTCATTAATTCTTTTA
1 AAAATTTTGAAAATTTTAATTAATTCTTTTA
3829324 AAAATTTT-AAAATTTTAATTAA
1 AAAATTTTGAAAATTTTAATTAA
3829346 GCCCTTCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 31 0.70
31 13 0.30
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (31 bp):
AAAATTTTGAAAATTTTAATTAATTCTTTTA
Found at i:3834156 original size:24 final size:23
Alignment explanation
Indices: 3834126--3834170 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
3834116 AAGAATTTTA
*
3834126 AAAAATAAAAAAGTCTAAATATTC
1 AAAAATAAAAAA-TATAAATATTC
3834150 AAAAATAAAAAATATAAATAT
1 AAAAATAAAAAATATAAATAT
3834171 AAATATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAAATAAAAAATATAAATATTC
Found at i:3834159 original size:23 final size:24
Alignment explanation
Indices: 3834126--3834170 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
3834116 AAGAATTTTA
* *
3834126 AAAAATAAAAAAGTCTAAATATTC
1 AAAAATAAAAAAATATAAATATTC
3834150 AAAAAT-AAAAAATATAAATAT
1 AAAAATAAAAAAATATAAATAT
3834171 AAATATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATAAAAAAATATAAATATTC
Found at i:3834160 original size:30 final size:30
Alignment explanation
Indices: 3834124--3834191 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
3834114 TAAAGAATTT
*
3834124 TAAAAAATAAAAAAGTCTAAATA-TTCAAAAA
1 TAAAAAAT-AAAAA-TATAAATATTTCAAAAA
*
3834155 TAAAAAATATAAATATAAATATTTCAAAAA
1 TAAAAAATAAAAATATAAATATTTCAAAAA
3834185 TAAAAAA
1 TAAAAAA
3834192 ATCAAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 7 0.21
30 19 0.56
31 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (30 bp):
TAAAAAATAAAAATATAAATATTTCAAAAA
Found at i:3835051 original size:23 final size:23
Alignment explanation
Indices: 3835019--3835091 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
3835009 TGCCCTGATC
*
3835019 TCTGCCCTCTGCTGATTCTTTGT
1 TCTGCTCTCTGCTGATTCTTTGT
*
3835042 TCTGCTCTCTGCTGGTTCTTTGT
1 TCTGCTCTCTGCTGATTCTTTGT
*
3835065 CCTCTGCTCTCTGC-CAGTTCTTTGT
1 --TCTGCTCTCTGCTGA-TTCTTTGT
3835090 TC
1 TC
3835092 CTCTTCTCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
23 23 0.53
25 20 0.47
ACGTcount: A:0.03, C:0.32, G:0.18, T:0.48
Consensus pattern (23 bp):
TCTGCTCTCTGCTGATTCTTTGT
Found at i:3837926 original size:19 final size:19
Alignment explanation
Indices: 3837881--3837941 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
3837871 ATCTAATTAC
3837881 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
3837902 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
3837921 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
3837940 AA
1 AA
3837942 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:3845300 original size:31 final size:29
Alignment explanation
Indices: 3845264--3845343 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
3845254 ATATTAAAAC
3845264 TATACATGAGA-TATGATTTAATGTGTAATTA
1 TATACATGA-ATTATGATTT--TGTGTAATTA
* *
3845295 TATACATGAATTTTGATTTTGTGTAATTT
1 TATACATGAATTATGATTTTGTGTAATTA
* *
3845324 TATACTTGAAATTTTGATTT
1 TATACATG-AATTATGATTT
3845344 GATCCCATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 16 0.36
30 12 0.27
31 16 0.36
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.50
Consensus pattern (29 bp):
TATACATGAATTATGATTTTGTGTAATTA
Found at i:3845318 original size:29 final size:30
Alignment explanation
Indices: 3845285--3845343 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
3845275 TATGATTTAA
3845285 TGTGTAATTATATACATG-AATTTTGATTT
1 TGTGTAATTATATACATGAAATTTTGATTT
* *
3845314 TGTGTAATTTTATACTTGAAATTTTGATTT
1 TGTGTAATTATATACATGAAATTTTGATTT
3845344 GATCCCATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (30 bp):
TGTGTAATTATATACATGAAATTTTGATTT
Found at i:3856879 original size:28 final size:28
Alignment explanation
Indices: 3856847--3856945 Score: 67
Period size: 28 Copynumber: 3.4 Consensus size: 28
3856837 TAATCTCGAT
3856847 TAATTAAGTGATCAAATTAAAAAATTGA
1 TAATTAAGTGATCAAATTAAAAAATTGA
** * *
3856875 TAATTGGGTGA-CAAATAAGAAAAAGTGACAA
1 TAATTAAGTGATCAAATTA-AAAAATTG---A
* * *
3856906 TAATTAGGTGATTAAATTAAAACAAATTAA
1 TAATTAAGTGATCAAATT-AAA-AAATTGA
3856936 TAATT-AGTGA
1 TAATTAAGTGA
3856946 AAGAAAAAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
27 6 0.11
28 16 0.30
29 4 0.07
30 6 0.11
31 11 0.20
32 6 0.11
33 5 0.09
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (28 bp):
TAATTAAGTGATCAAATTAAAAAATTGA
Found at i:3868548 original size:30 final size:30
Alignment explanation
Indices: 3868512--3868575 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
3868502 CCTTTACAGA
*
3868512 TAATTAGAGGCGTTCATGGCACAATTGGGT
1 TAATTAGAGGCGTTCATGGCAAAATTGGGT
3868542 TAATTAGAGGCGTTCATGGCAAAATTGGGT
1 TAATTAGAGGCGTTCATGGCAAAATTGGGT
3868572 TAAT
1 TAAT
3868576 GTATGTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (30 bp):
TAATTAGAGGCGTTCATGGCAAAATTGGGT
Found at i:3879356 original size:24 final size:24
Alignment explanation
Indices: 3879320--3879367 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3879310 AATTTTTCGG
* **
3879320 CAGAGAGAGAGAGCTAAAGAAAAA
1 CAGAGAGAAAGAGAGAAAGAAAAA
3879344 CAGAGAGAAAGAGAGAAAGAAAAA
1 CAGAGAGAAAGAGAGAAAGAAAAA
3879368 AAATCAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.62, C:0.06, G:0.29, T:0.02
Consensus pattern (24 bp):
CAGAGAGAAAGAGAGAAAGAAAAA
Found at i:3884137 original size:24 final size:24
Alignment explanation
Indices: 3884101--3884148 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3884091 AAATTTTCGG
* **
3884101 CAGAGAGAGAGAGCTAAAGAAAAA
1 CAGAGAGAAAGAGAGAAAGAAAAA
3884125 CAGAGAGAAAGAGAGAAAGAAAAA
1 CAGAGAGAAAGAGAGAAAGAAAAA
3884149 AAATCAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.62, C:0.06, G:0.29, T:0.02
Consensus pattern (24 bp):
CAGAGAGAAAGAGAGAAAGAAAAA
Found at i:3895411 original size:14 final size:15
Alignment explanation
Indices: 3895389--3895465 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
3895379 CAATCAAACA
3895389 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
3895403 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
* *
3895418 ACAGAAAAGTAAAATATTTT
1 CCAGAAAA-T----CATTTT
3895438 CCA-AAAATCATTTT
1 CCAGAAAATCATTTT
*
3895452 ACAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
3895466 ACTGGCAATC
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
14 20 0.41
15 16 0.33
16 1 0.02
18 1 0.02
19 4 0.08
20 7 0.14
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:3895451 original size:34 final size:35
Alignment explanation
Indices: 3895393--3895459 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
3895383 CAAACACCAG
*
3895393 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGAAAATCATTTTACAGAAAAGT
3895428 AAAATATTTTCCA-AAAATCATTTTACAGAAAA
1 AAAATATTTTCCAGAAAATCATTTTACAGAAAA
3895460 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:3895466 original size:14 final size:13
Alignment explanation
Indices: 3895428--3895467 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
3895418 ACAGAAAAGT
*
3895428 AAAATATTTTCCA
1 AAAATATTTTACA
3895441 AAAATCATTTTACA
1 AAAAT-ATTTTACA
3895455 GAAAATATTTTAC
1 -AAAATATTTTAC
3895468 TGGCAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 14 0.58
15 5 0.21
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (13 bp):
AAAATATTTTACA
Found at i:3895764 original size:26 final size:26
Alignment explanation
Indices: 3895728--3895811 Score: 100
Period size: 26 Copynumber: 3.2 Consensus size: 26
3895718 AGCCCTCTTT
3895728 TTTTTTTTGGTATATTTTGGTAAATA
1 TTTTTTTTGGTATATTTTGGTAAATA
*
3895754 TTTTTTTTGGTATATTTTGATAAATAAA
1 TTTTTTTTGGTATATTTTGGTAAAT--A
**
3895782 TTTTTTCGGGGTATATTTTGGT--ATA
1 TTTTTT-TTGGTATATTTTGGTAAATA
3895807 TTTTT
1 TTTTT
3895812 ATTTCTTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
25 6 0.12
26 24 0.47
27 2 0.04
28 7 0.14
29 12 0.24
ACGTcount: A:0.23, C:0.01, G:0.15, T:0.61
Consensus pattern (26 bp):
TTTTTTTTGGTATATTTTGGTAAATA
Found at i:3904499 original size:105 final size:106
Alignment explanation
Indices: 3904316--3904515 Score: 366
Period size: 105 Copynumber: 1.9 Consensus size: 106
3904306 AAAATTTTTC
3904316 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
3904381 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
* *
3904422 TAAATAAGGCGATATTTCGCGTTTGGAAAATCGAG-AAATGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
3904486 TTCTTGTTCGACCAAATAGCCAAATATCCT
66 TTCTCGTTCGACCAAATAGCCAAATATCCT
3904516 CTTAAAGCTT
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 57 0.63
106 34 0.37
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
Found at i:3911023 original size:22 final size:23
Alignment explanation
Indices: 3910993--3911035 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3910983 AGCCTAATGC
* *
3910993 GAGGGAAAGGAGG-AAAGAGATG
1 GAGGAAAAGCAGGAAAAGAGATG
3911015 GAGGAAAAGCAGGAAAAGAGA
1 GAGGAAAAGCAGGAAAAGAGA
3911036 AGAGCACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.51, C:0.02, G:0.44, T:0.02
Consensus pattern (23 bp):
GAGGAAAAGCAGGAAAAGAGATG
Found at i:3915835 original size:43 final size:45
Alignment explanation
Indices: 3915771--3916125 Score: 424
Period size: 44 Copynumber: 8.1 Consensus size: 45
3915761 ATAGGTCCTA
* * * * *
3915771 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGATA-CAAATCTTG
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3915814 TCTT-CCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGATCTTG
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3915858 TCTTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGATCTTG
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
* *
3915903 TCTTCCCATATTGGTGGCGAAGTAGATCGAAG-TAGCAGATCCTA
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3915947 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
* *
3915990 TCTTCCCATATTGGTGGCGAAGTAGATCGAAG-TAGCAGATCCTA
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3916034 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3916077 TCTTCCCATATTGGTGGCGAAGTAGAT-GCAGAAAGTAGATCTTG
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
3916121 TCTTC
1 TCTTC
3916126 ATCGAAGGTA
Statistics
Matches: 269, Mismatches: 34, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
42 10 0.04
43 93 0.35
44 96 0.36
45 70 0.26
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
TCTTCCCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:3916001 original size:87 final size:87
Alignment explanation
Indices: 3915766--3916103 Score: 516
Period size: 87 Copynumber: 3.9 Consensus size: 87
3915756 CGTAAATAGG
* * *
3915766 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATACAAATCTTGTCTT-CCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * *
3915830 CGAAGTAGATTGCAGAAAGCAGA
66 CGAAGTAGATCGAAG-TAGCAGA
* * * * * * * *
3915853 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGATCTTGTCTTCCCATATTGGT
1 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGT
3915918 GGCGAAGTAGATCGAAGTAGCAGA
64 GGCGAAGTAGATCGAAGTAGCAGA
3915942 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
3916007 CGAAGTAGATCGAAGTAGCAGA
66 CGAAGTAGATCGAAGTAGCAGA
3916029 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
3916094 CGAAGTAGAT
66 CGAAGTAGAT
3916104 GCAGAAAGTA
Statistics
Matches: 226, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
87 143 0.63
88 21 0.09
89 37 0.16
90 25 0.11
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (87 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGAAGTAGCAGA
Found at i:3916209 original size:111 final size:111
Alignment explanation
Indices: 3916015--3916238 Score: 407
Period size: 111 Copynumber: 2.0 Consensus size: 111
3916005 GGCGAAGTAG
*
3916015 ATCGAAGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
1 ATCGAAGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCT
3916080 TCCCATATTGGTGGCGAAGTAGAT-GCAGAAAGTAGATCTTGTCTTC
66 TCCCATATTGGTGGCGAAGTAGATCG-AGAAAGTAGATCTTGTCTTC
3916126 ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATC-AAGATACAGATCTTGTC
1 ATCGAA-GTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTC
3916190 TTCCCATATTGGTGGCGAAGTAGATCGAGAAAGTAGATCTTGTCTTC
65 TTCCCATATTGGTGGCGAAGTAGATCGAGAAAGTAGATCTTGTCTTC
3916237 AT
1 AT
3916239 GTATTGGCGC
Statistics
Matches: 110, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
111 69 0.63
112 41 0.37
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (111 bp):
ATCGAAGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCT
TCCCATATTGGTGGCGAAGTAGATCGAGAAAGTAGATCTTGTCTTC
Found at i:3916235 original size:44 final size:45
Alignment explanation
Indices: 3916126--3916408 Score: 269
Period size: 44 Copynumber: 6.5 Consensus size: 45
3916116 TCTTGTCTTC
** * * *
3916126 ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGG
1 ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAG
* * *
3916170 ATC-AAGATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
1 ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAG
* * * *
3916213 ATCG-AGAAAGTAGATCTTGTCTTCATGTATTGG-CGCGAAGTAG
1 ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAG
** * * *
3916256 ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGG
1 ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAG
* * *
3916300 ATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
1 ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAG
* * * * * *
3916344 ATTGCAGAAAGCAGAT-TTGTCTTCATGTATTGG-CGTGAAGTAG
1 ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAG
3916387 ATCGAAGAAAGCAGATCTTGTC
1 ATCGAAGAAAGCAGATCTTGTC
3916409 CCTGTATTTG
Statistics
Matches: 193, Mismatches: 38, Indels: 16
0.78 0.15 0.06
Matches are distributed among these distances:
42 22 0.11
43 76 0.39
44 87 0.45
45 8 0.04
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (45 bp):
ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAG
Found at i:3916317 original size:198 final size:198
Alignment explanation
Indices: 3915928--3916323 Score: 552
Period size: 198 Copynumber: 2.0 Consensus size: 198
3915918 GGCGAAGTAG
*
3915928 ATCGAAGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
1 ATCGAAGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCT
* * *
3915993 TCCCATATTGGTGGCGAAGTAGATCGAAGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGG
66 TCCCATATTGGTGGCGAAGTAGATCGAAGAAGCAGATCCTATCTTCATATATTGGTAGGAAGTAG
* * * *
3916058 ATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATGCAGAAAGTAGATCTTGTC
131 ATCGAAGATGCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATGCAGAAAGCAGATCTTGTC
3916123 TTC
196 TTC
3916126 ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATC-AAGATACAGATCTTGTC
1 ATCGAA-GTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTC
* * * * *
3916190 TTCCCATATTGGTGGCGAAGTAGATCG-AGAAAGTAGATCTTGTCTTCATGTATTGG-CGCGAAG
65 TTCCCATATTGGTGGCGAAGTAGATCGAAG-AAGCAGATCCTATCTTCATATATTGGTAG-GAAG
* * *
3916253 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGAT-C-GAAGATGCAGAT
128 TAGATCGAAGAT-GCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATGCAGAA-A-GCAGAT
3916315 CTTGTCTTC
190 CTTGTCTTC
3916324 CCATATTGGT
Statistics
Matches: 176, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
196 3 0.02
197 5 0.03
198 105 0.60
199 63 0.36
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (198 bp):
ATCGAAGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCT
TCCCATATTGGTGGCGAAGTAGATCGAAGAAGCAGATCCTATCTTCATATATTGGTAGGAAGTAG
ATCGAAGATGCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATGCAGAAAGCAGATCTTGTC
TTC
Found at i:3916365 original size:131 final size:130
Alignment explanation
Indices: 3916126--3916403 Score: 477
Period size: 131 Copynumber: 2.1 Consensus size: 130
3916116 TCTTGTCTTC
3916126 ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCAAGATACAGATCTTGTCT
1 ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCAAGATACAGATCTTGTCT
*
3916191 TCCCATATTGGTGGCGAAGTAGATCGAGAAAGTAGATCTTGTCTTCATGTATTGGCGCGAAGTAG
66 TCCCATATTGGTGGCGAAGTAGATCGAGAAAGCAGATCTTGTCTTCATGTATTGGCGCGAAGTAG
*
3916256 ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTC
1 ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATC-AAGATACAGATCTTGTC
* *
3916321 TTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGAT-TTGTCTTCATGTATTGGCGTGAAGT
65 TTCCCATATTGGTGGCGAAGTAGATCG-AGAAAGCAGATCTTGTCTTCATGTATTGGCGCGAAGT
3916385 AG
129 AG
**
3916387 ATCGAAGAAAGCAGATC
1 ATCGAAGGTAGCAGATC
3916404 TTGTCCCTGT
Statistics
Matches: 140, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
130 47 0.34
131 83 0.59
132 10 0.07
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (130 bp):
ATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCAAGATACAGATCTTGTCT
TCCCATATTGGTGGCGAAGTAGATCGAGAAAGCAGATCTTGTCTTCATGTATTGGCGCGAAGTAG
Found at i:3916366 original size:242 final size:243
Alignment explanation
Indices: 3915892--3916369 Score: 716
Period size: 242 Copynumber: 2.0 Consensus size: 243
3915882 GATTGCAGAA
* * * *
3915892 AGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGTAGCAGATCCTATCTTCCTATA
1 AGCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGTAGCAGATCCTATCTTCCCATA
* * * *
3915957 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTAGATCGAAGAAGCAGATCTTGTCTTCACATATTGGTCGCGAAGTAGATCGAAG
3916022 TAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATA
131 TAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATA
*
3916087 TTGGTGGCGAAGTAGATGCAGAAAGTAGATCTTGTCTTCATCGAAGGT
196 TTGGTGGCGAAGTAGATGCAGAAAGCAGATCTTGTCTTCATCGAAGGT
* * * *
3916135 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC-AAGATA-CAGATCTTGTCTTCCCAT
1 AGCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAG-TAGCAGATCCTATCTTCCCAT
* * **
3916197 ATTGGTGGCGAAGTAGATCG-AGAAAGTAGATCTTGTCTTCATGTATTGG-CGCGAAGTAGATCG
65 ATTGGTAG-GAAGTAGATCGAAG-AAGCAGATCTTGTCTTCACATATTGGTCGCGAAGTAGATCG
3916260 AAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
128 AA-GTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
3916325 CATATTGGTGGCGAAGTAGATTGCAGAAAGCAGAT-TTGTCTTCAT
192 CATATTGGTGGCGAAGTAGA-TGCAGAAAGCAGATCTTGTCTTCAT
3916370 GTATTGGCGT
Statistics
Matches: 213, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
241 42 0.20
242 134 0.63
243 37 0.17
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (243 bp):
AGCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGTAGCAGATCCTATCTTCCCATA
TTGGTAGGAAGTAGATCGAAGAAGCAGATCTTGTCTTCACATATTGGTCGCGAAGTAGATCGAAG
TAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATA
TTGGTGGCGAAGTAGATGCAGAAAGCAGATCTTGTCTTCATCGAAGGT
Found at i:3916367 original size:87 final size:89
Alignment explanation
Indices: 3916163--3916408 Score: 245
Period size: 87 Copynumber: 2.8 Consensus size: 89
3916153 ATATTGGTAG
* * * * *
3916163 GAAGTGGATC-AAGATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG-AGAAAGTA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCA
**
3916225 GATCTTGTCTTCATGTATTGGCGC
66 GATCTTGTCTTCACATATTGGCGC
** * * * *
3916249 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCA
* *
3916312 GATCTTGTCTTCCCATATTGGTGGC
66 GATCTTGTCTTCACATATTGG-CGC
* * * * * *
3916337 GAAGTAGATTGCAGAAAGCAGAT-TTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCA
3916400 GATCTTGTC
66 GATCTTGTC
3916409 CCTGTATTTG
Statistics
Matches: 130, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
86 10 0.08
87 62 0.48
88 58 0.45
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (89 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCA
GATCTTGTCTTCACATATTGGCGC
Found at i:3918297 original size:38 final size:37
Alignment explanation
Indices: 3918213--3918306 Score: 95
Period size: 38 Copynumber: 2.5 Consensus size: 37
3918203 TATACATACT
3918213 TATACATACTTAAATATATTTTCCATATTTCATAATTC
1 TATACATACTTAAATATATTTTCCATATTT-ATAATTC
* * *
3918251 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TCCATATTTATA-ATTC
*
3918287 ATATACATACTTATATATAT
1 -TATACATACTTAAATATAT
3918307 ATTCTTTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
36 4 0.09
37 19 0.40
38 24 0.51
ACGTcount: A:0.37, C:0.14, G:0.01, T:0.48
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTCCATATTTATAATTC
Found at i:3919365 original size:1 final size:1
Alignment explanation
Indices: 3919313--3919348 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
3919303 TTTACCTCCG
3919313 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3919349 CATCATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3922112 original size:120 final size:123
Alignment explanation
Indices: 3921902--3922242 Score: 500
Period size: 123 Copynumber: 2.8 Consensus size: 123
3921892 GCCAAACTTG
* *
3921902 CTACTGTAGCAAATCG-GTCCACGA-AGTGCG--TTCACAATTTCTTCTCAAATAGCATCCTGGT
1 CTACTGTAGCAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
*
3921963 AGAAGCGATTTTATACTTTTTGCTCAGAAACGTCAAAAAAAATA-TTTCTTA-ATGAC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATATTTTCTTACATGAC
* *
3922019 CTACTGTAGCAAATAGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAACAGCAT-CTGGT
1 CTACTGTAGCAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
* * **
3922083 AGAAGTGATTTTATACTATTTGCTCAGAAATGTCAAAAAATTTATTTTCTTACATGAC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATATTTTCTTACATGAC
*
3922141 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCTTCCTGG
1 CTACTGTAGC-AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
3922206 TAGAAGCGATTTTATATTACTTGAC-CAGAAACGTCAA
65 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
3922243 CTCGAAATAA
Statistics
Matches: 199, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
117 15 0.08
118 8 0.04
119 4 0.02
120 44 0.22
121 31 0.16
122 15 0.08
123 46 0.23
124 35 0.18
125 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (123 bp):
CTACTGTAGCAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATATTTTCTTACATGAC
Found at i:3934614 original size:8 final size:8
Alignment explanation
Indices: 3934603--3934627 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3934593 CCACCTACCC
3934603 CCCACTTG
1 CCCACTTG
3934611 CCCACTTG
1 CCCACTTG
3934619 CCCACTTG
1 CCCACTTG
3934627 C
1 C
3934628 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:3935155 original size:13 final size:12
Alignment explanation
Indices: 3935119--3935156 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
3935109 CCTTTCCCCC
3935119 TCCCTTCTCTC-
1 TCCCTTCTCTCT
3935130 TCCCTTCTCTCT
1 TCCCTTCTCTCT
3935142 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
3935155 TC
1 TC
3935157 TTTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:3935644 original size:3 final size:3
Alignment explanation
Indices: 3935629--3935690 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
3935619 GTTACTTTTA
* * * *
3935629 TAT TAT TAG TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT GTAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
3935675 TAT ATAT TTT TAT TAT
1 TAT -TAT TAT TAT TAT
3935691 GTACGTGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:3935687 original size:23 final size:22
Alignment explanation
Indices: 3935632--3935693 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
3935622 ACTTTTATAT
*
3935632 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
3935653 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
3935675 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
3935694 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:3935700 original size:23 final size:23
Alignment explanation
Indices: 3935627--3935701 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
3935617 TTGTTACTTT
* *
3935627 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
3935650 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
3935675 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
3935698 TATA
1 TATA
3935702 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:3935775 original size:25 final size:24
Alignment explanation
Indices: 3935728--3935775 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3935718 TATATTTTCA
*
3935728 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
3935752 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
3935776 ATATATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:3939648 original size:22 final size:20
Alignment explanation
Indices: 3939595--3939651 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
3939585 TTATATACAT
*
3939595 ATATATACATACATTTTTATA
1 ATATATACATA-TTTTTTATA
3939616 ATATACGTACATATTTTTTATA
1 ATATA--TACATATTTTTTATA
3939638 ACTTATATACATAT
1 A--TATATACATAT
3939652 ATACATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.16
22 16 0.52
23 6 0.19
24 4 0.13
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATATACATATTTTTTATA
Found at i:3939666 original size:12 final size:12
Alignment explanation
Indices: 3939649--3939723 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 12
3939639 CTTATATACA
3939649 TATATACATATT
1 TATATACATATT
* *
3939661 TATATATATTTTT
1 TATATACA-TATT
**
3939674 TATATTTTATAATT
1 TATA-TACAT-ATT
* *
3939688 TATAAACATATC
1 TATATACATATT
* *
3939700 TATATATATATC
1 TATATACATATT
3939712 TATATACATATT
1 TATATACATATT
3939724 CTTAATTTTC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
12 29 0.60
13 10 0.21
14 9 0.19
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATACATATT
Found at i:3939697 original size:39 final size:40
Alignment explanation
Indices: 3939626--3939708 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 40
3939616 ATATACGTAC
* *
3939626 ATATTTTTTATAACTTATATACATATATACATATTTATAT
1 ATATTTTTTATAACTTATATACATATAAACATATCTATAT
** **
3939666 ATATTTTTTATATTTTATA-ATTTATAAACATATCTATAT
1 ATATTTTTTATAACTTATATACATATAAACATATCTATAT
3939705 ATAT
1 ATAT
3939709 ATCTATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 20 0.54
40 17 0.46
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (40 bp):
ATATTTTTTATAACTTATATACATATAAACATATCTATAT
Found at i:3941122 original size:30 final size:30
Alignment explanation
Indices: 3941088--3941174 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
3941078 ATAATTTTAA
3941088 AATTTTAAAAATAAATAATTATACTTGTTG
1 AATTTTAAAAATAAATAATTATACTTGTTG
*
3941118 AATTTTTAAAAAT-AAT--TT-TA------A
1 AA-TTTTAAAAATAAATAATTATACTTGTTG
3941139 AATTTTAAAAATAAATAATTATACTTGTTG
1 AATTTTAAAAATAAATAATTATACTTGTTG
3941169 AATTTT
1 AATTTT
3941175 TACTTTCCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 22
0.65 0.03 0.32
Matches are distributed among these distances:
20 10 0.23
21 5 0.11
23 2 0.05
24 2 0.05
27 2 0.05
28 2 0.05
30 11 0.25
31 10 0.23
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (30 bp):
AATTTTAAAAATAAATAATTATACTTGTTG
Found at i:3941149 original size:51 final size:51
Alignment explanation
Indices: 3941074--3941176 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
3941064 AAAAAATCTA
3941074 AAAAATAATTTTAAAATTTTAAAAATAAATAATTATACTTGTTGAATTTTT
1 AAAAATAATTTTAAAATTTTAAAAATAAATAATTATACTTGTTGAATTTTT
3941125 AAAAATAATTTTAAAATTTTAAAAATAAATAATTATACTTGTTGAATTTTT
1 AAAAATAATTTTAAAATTTTAAAAATAAATAATTATACTTGTTGAATTTTT
3941176 A
1 A
3941177 CTTTCCATTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (51 bp):
AAAAATAATTTTAAAATTTTAAAAATAAATAATTATACTTGTTGAATTTTT
Found at i:3941705 original size:28 final size:28
Alignment explanation
Indices: 3941672--3941742 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
3941662 TTAAGATGAC
*
3941672 TATATAAAAATATTCAATAAATAAAA-AA
1 TATATAAAAATATTAAAT-AATAAAATAA
* *
3941700 TATATAAAATTATTAAATATTAAAATAA
1 TATATAAAAATATTAAATAATAAAATAA
*
3941728 TATAATATAAATATT
1 TAT-ATAAAAATATT
3941743 TAAAAAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.17
28 21 0.58
29 9 0.25
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
TATATAAAAATATTAAATAATAAAATAA
Found at i:3941724 original size:26 final size:25
Alignment explanation
Indices: 3941672--3941748 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 25
3941662 TTAAGATGAC
* *
3941672 TATATAAAAATATTCAATAAATAAAAAA
1 TATAT-AAAATATT-AA-ATATTAAAAA
3941700 TATATAAAATTATTAAATATT-AAAA
1 TATATAAAA-TATTAAATATTAAAAA
*
3941725 TA-ATATAATA-TAAATATTTAAAAA
1 TATATAAAATATTAAATA-TTAAAAA
3941749 AATGGCGCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 6 0.14
23 4 0.09
24 9 0.21
25 6 0.14
26 3 0.07
27 6 0.14
28 9 0.21
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (25 bp):
TATATAAAATATTAAATATTAAAAA
Found at i:3944365 original size:5 final size:5
Alignment explanation
Indices: 3944355--3944382 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
3944345 AACAGGTTTA
3944355 AATTC AATTC AATTC AATTC AATTC AAT
1 AATTC AATTC AATTC AATTC AATTC AAT
3944383 CTTTACCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTC
Found at i:3944977 original size:48 final size:47
Alignment explanation
Indices: 3944902--3945094 Score: 176
Period size: 48 Copynumber: 4.0 Consensus size: 47
3944892 GCACCTGCGA
* * * * *
3944902 CTCTTGTTGGTCATGATTCT-GTAGTTTGTTTCCCTTGTGTTCATCTTG
1 CTCTAGTTGGTCTTGATT-TAGTTGTTTGGTTCCCTTG-GTTCATCTTC
* * *
3944950 CTCTAGTTGATCTTGATTTAGTTGTTTGGTCCCCTTCGATTCATCTTC
1 CTCTAGTTGGTCTTGATTTAGTTGTTTGGTTCCCTT-GGTTCATCTTC
* * * *
3944998 CTCTAGTTGGTCTTGGTTCAGTTGTTTGGTTCCCCTGGGTTCATCCTC
1 CTCTAGTTGGTCTTGATTTAGTTGTTTGGTT-CCCTTGGTTCATCTTC
* *
3945046 CTCTAGTTGGTCTTGAATTT--TTGGTTTGTTTACCCTCGGTTCATCTTC
1 CTCTAGTTGGTCTTG-ATTTAGTT-GTTTGGTT-CCCTTGGTTCATCTTC
3945094 C
1 C
3945095 ATTTCCGCCA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 3 0.03
48 109 0.92
49 7 0.06
ACGTcount: A:0.09, C:0.22, G:0.20, T:0.48
Consensus pattern (47 bp):
CTCTAGTTGGTCTTGATTTAGTTGTTTGGTTCCCTTGGTTCATCTTC
Found at i:3945089 original size:96 final size:95
Alignment explanation
Indices: 3944902--3945094 Score: 210
Period size: 96 Copynumber: 2.0 Consensus size: 95
3944892 GCACCTGCGA
* * * * * * *
3944902 CTCTTGTTGGTCATGATTCTGTAGTTTGTTTCCCTTGTGTTCATCTTGCTCTAGTTGATCTTGAT
1 CTCTAGTTGGTCATGATTCAGTAGTTTGGTTCCCCTGGGTTCATCCTCCTCTAGTTGATCTTGAT
*
3944967 TTAGTTGTTTGGTCCCCTTCGATTCATCTTC
66 TTA-TTGTTTGGTACCCTTCGATTCATCTTC
* * * *
3944998 CTCTAGTTGGTCTTGGTTCAGTTGTTTGGTTCCCCTGGGTTCATCCTCCTCTAGTTGGTCTTGAA
1 CTCTAGTTGGTCATGATTCAGTAGTTTGGTTCCCCTGGGTTCATCCTCCTCTAGTTGATCTTG-A
* *
3945063 TTT-TTGGTTTGTTTACCC-TCGGTTCATCTTC
65 TTTATT-GTTTG-GTACCCTTCGATTCATCTTC
3945094 C
1 C
3945095 ATTTCCGCCA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
95 2 0.03
96 70 0.88
97 8 0.10
ACGTcount: A:0.09, C:0.22, G:0.20, T:0.48
Consensus pattern (95 bp):
CTCTAGTTGGTCATGATTCAGTAGTTTGGTTCCCCTGGGTTCATCCTCCTCTAGTTGATCTTGAT
TTATTGTTTGGTACCCTTCGATTCATCTTC
Found at i:3946857 original size:20 final size:20
Alignment explanation
Indices: 3946819--3946857 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3946809 AGAATTGTTT
*
3946819 GGAATGTGTTGTTTGGAGCA
1 GGAATGTGTTGTTTAGAGCA
3946839 GGAATGTTGTTG-TTAGAGC
1 GGAATG-TGTTGTTTAGAGC
3946858 CACTCAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.05, G:0.38, T:0.36
Consensus pattern (20 bp):
GGAATGTGTTGTTTAGAGCA
Found at i:3948591 original size:9 final size:9
Alignment explanation
Indices: 3948569--3948624 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 9
3948559 GGATTTTAAG
3948569 TTTTAGGG-
1 TTTTAGGGT
3948577 TTTTAGGGT
1 TTTTAGGGT
**
3948586 TTTTAGGAC
1 TTTTAGGGT
*
3948595 TTTTAGAGT
1 TTTTAGGGT
**
3948604 TTTTAGGAC
1 TTTTAGGGT
3948613 TTTTAGGGT
1 TTTTAGGGT
3948622 TTT
1 TTT
3948625 GGAGAAAAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
8 8 0.22
9 29 0.78
ACGTcount: A:0.16, C:0.04, G:0.27, T:0.54
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:3948600 original size:18 final size:18
Alignment explanation
Indices: 3948577--3948624 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
3948567 AGTTTTAGGG
3948577 TTTTAGGGTTTTTAGGAC
1 TTTTAGGGTTTTTAGGAC
*
3948595 TTTTAGAGTTTTTAGGAC
1 TTTTAGGGTTTTTAGGAC
3948613 TTTTAGGGTTTT
1 TTTTAGGGTTTT
3948625 GGAGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.04, G:0.25, T:0.54
Consensus pattern (18 bp):
TTTTAGGGTTTTTAGGAC
Found at i:3949330 original size:40 final size:42
Alignment explanation
Indices: 3949267--3949363 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 42
3949257 ATCGCCCCCT
* *
3949267 CGTGGATGCGATTTGTTGCCACGTCAGC-AA-AGCGCGCTGA
1 CGTGGCTGCGATTTGTTGCCACGTCACCTAACAGCGCGCTGA
* * *
3949307 CGTGGCTGCGATTT-TCTGGCACGTCCCCTAACATCGCGCTGA
1 CGTGGCTGCGATTTGT-TGCCACGTCACCTAACAGCGCGCTGA
3949349 CGTGGAC-GCGATTTG
1 CGTGG-CTGCGATTTG
3949364 CCGGAAAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
39 1 0.02
40 22 0.47
41 2 0.04
42 21 0.45
43 1 0.02
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.25
Consensus pattern (42 bp):
CGTGGCTGCGATTTGTTGCCACGTCACCTAACAGCGCGCTGA
Found at i:3959070 original size:18 final size:17
Alignment explanation
Indices: 3959030--3959076 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
3959020 CGTGTAAGTG
*
3959030 TATAAAAATAATAATGA
1 TATAAAAATAATAATAA
3959047 TGATAAAAATAATGAATAA
1 T-ATAAAAATAAT-AATAA
*
3959066 TATAATAATAA
1 TATAAAAATAA
3959077 GGATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
TATAAAAATAATAATAA
Found at i:3959072 original size:15 final size:15
Alignment explanation
Indices: 3959035--3959091 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
3959025 AAGTGTATAA
3959035 AAATAATAATGATGAT
1 AAATAATAATGA-GAT
3959051 AAA-AATAATGA-AT
1 AAATAATAATGAGAT
*
3959064 AATATAATAATAAGGAT
1 AA-ATAATAATGA-GAT
3959081 ACAATAATAAT
1 A-AATAATAAT
3959092 ATTAACAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 4 0.11
14 1 0.03
15 15 0.43
16 3 0.09
17 11 0.31
18 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (15 bp):
AAATAATAATGAGAT
Found at i:3962268 original size:18 final size:19
Alignment explanation
Indices: 3962247--3962288 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
3962237 GCAAAATTTG
3962247 GGTTAAACCGA-AAAATTC
1 GGTTAAACCGACAAAATTC
**
3962265 GGTT-AACCGACCGAATTC
1 GGTTAAACCGACAAAATTC
3962283 GGTTAA
1 GGTTAA
3962289 TCGGTCGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 13 0.65
19 1 0.05
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (19 bp):
GGTTAAACCGACAAAATTC
Found at i:3962622 original size:9 final size:9
Alignment explanation
Indices: 3962600--3962647 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
3962590 CAGTGATTTA
3962600 AATT-GGTT
1 AATTCGGTT
*
3962608 AGTTCGGTT
1 AATTCGGTT
3962617 AATTCGGTT
1 AATTCGGTT
3962626 AATTCGGTT
1 AATTCGGTT
3962635 AATTCGGTT
1 AATTCGGTT
3962644 AATT
1 AATT
3962648 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
8 3 0.08
9 34 0.92
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
AATTCGGTT
Found at i:3964907 original size:25 final size:25
Alignment explanation
Indices: 3964822--3964954 Score: 118
Period size: 25 Copynumber: 5.6 Consensus size: 25
3964812 TTGTTATGCA
* *
3964822 CTAATGAA-CAGAGAGCACTGAAGTG
1 CTAAT-AATCAGATAGCACTGATGTG
* **
3964847 CT-AT-AT-AGAGAGCACAAATGTG
1 CTAATAATCAGATAGCACTGATGTG
* **
3964869 CT-A-AA-CAGAGAGCACTGACATG
1 CTAATAATCAGATAGCACTGATGTG
* *
3964891 CTAGTAATCAGATAGCACTAATGTG
1 CTAATAATCAGATAGCACTGATGTG
3964916 CTAATAATCAGATAGCACTGATGTG
1 CTAATAATCAGATAGCACTGATGTG
3964941 CTAATAATCAGATA
1 CTAATAATCAGATA
3964955 ACGCACTAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
22 32 0.36
24 4 0.05
25 52 0.59
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (25 bp):
CTAATAATCAGATAGCACTGATGTG
Found at i:3964949 original size:50 final size:49
Alignment explanation
Indices: 3964822--3964963 Score: 152
Period size: 50 Copynumber: 2.9 Consensus size: 49
3964812 TTGTTATGCA
* *
3964822 CTAATGAACAGAGAGCACTGAAGTGCT-AT-AT-AGAGAGCACAAATGTG
1 CTAAT-AACAGAGAGCACTGAAGTGCTAATAATCAGATAGCACTAATGTG
*
3964869 CT-A-AACAGAGAGCACTGACA-TGCTAGTAATCAGATAGCACTAATGTG
1 CTAATAACAGAGAGCACTGA-AGTGCTAATAATCAGATAGCACTAATGTG
* *
3964916 CTAATAATCAGATAGCACTGATGTGCTAATAATCAGATAACGCACTAA
1 CTAATAA-CAGAGAGCACTGAAGTGCTAATAATCAGAT-A-GCACTAA
3964964 AGTTTCCTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
44 19 0.24
45 2 0.03
46 3 0.04
47 18 0.23
48 1 0.01
49 2 0.03
50 26 0.33
51 1 0.01
52 7 0.09
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (49 bp):
CTAATAACAGAGAGCACTGAAGTGCTAATAATCAGATAGCACTAATGTG
Found at i:3965911 original size:3 final size:3
Alignment explanation
Indices: 3965903--3965957 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
3965893 TTTTATATAT
3965903 ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3965946 ATTA AT- ATA ATA
1 A-TA ATA ATA ATA
3965958 CTTATTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
2 12 0.27
3 30 0.67
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:3965914 original size:8 final size:8
Alignment explanation
Indices: 3965901--3965957 Score: 105
Period size: 8 Copynumber: 7.0 Consensus size: 8
3965891 TGTTTTATAT
3965901 ATATAATA
1 ATATAATA
3965909 ATATAATA
1 ATATAATA
3965917 ATATAATA
1 ATATAATA
3965925 ATATAATA
1 ATATAATA
3965933 ATATAATA
1 ATATAATA
3965941 ATATAATTA
1 ATATAA-TA
3965950 ATATAATA
1 ATATAATA
3965958 CTTATTTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
8 40 0.83
9 8 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:3967071 original size:62 final size:62
Alignment explanation
Indices: 3966970--3967192 Score: 244
Period size: 62 Copynumber: 3.7 Consensus size: 62
3966960 CAATGTACCT
*
3966970 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAACAA
* * *
3967032 AATTTATATTACAATGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATTTTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAACAA
** * * * * *
3967094 AATTTATATTACAAAACTTGTTCTAAGTTTTAGTGTTGTAA--TATTGTAA-TTA-AT--C-T
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATT-TAATTTATATAACAA
** * *
3967150 AATTTATGACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAAT
1 AATTTAT-ATTACAAAGTTTGTTCCAATTTTTAATATTGTAAT
3967193 TACTCTAATT
Statistics
Matches: 139, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
56 7 0.05
57 29 0.21
59 1 0.01
60 7 0.05
61 3 0.02
62 92 0.66
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAACAA
Found at i:3967099 original size:14 final size:14
Alignment explanation
Indices: 3967080--3967109 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3967070 TAATGTATTT
*
3967080 AATTTATTTTACAA
1 AATTTATATTACAA
3967094 AATTTATATTACAA
1 AATTTATATTACAA
3967108 AA
1 AA
3967110 CTTGTTCTAA
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:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:3968393 original size:27 final size:27
Alignment explanation
Indices: 3968363--3968414 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
3968353 AAAAACAAGT
3968363 AAATAAAAATAAAAAG-CCAAATAAATA
1 AAATAAAAATAAAAAGTCC-AATAAATA
* *
3968390 AAATTAAAATCAAAAGTCCAATAAA
1 AAATAAAAATAAAAAGTCCAATAAA
3968415 AACAGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.17
Consensus pattern (27 bp):
AAATAAAAATAAAAAGTCCAATAAATA
Found at i:3971307 original size:16 final size:16
Alignment explanation
Indices: 3971243--3971307 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
3971233 AAAAACATGC
3971243 CAAATAAATTACATAA
1 CAAATAAATTACATAA
*
3971259 AAAATAAATCTA-ATCAA
1 CAAATAAAT-TACAT-AA
* * *
3971276 CCTAA-AACTCACATAA
1 -CAAATAAATTACATAA
3971292 CAAATAAATTACATAA
1 CAAATAAATTACATAA
3971308 AAAAATAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
15 3 0.08
16 22 0.61
17 9 0.25
18 2 0.06
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (16 bp):
CAAATAAATTACATAA
Found at i:3971931 original size:31 final size:30
Alignment explanation
Indices: 3971864--3971933 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
3971854 CTATGGAGAT
*
3971864 GGCGTGACCGGTGGTGCCACCTCTGCCAAA
1 GGCGTGACCAGTGGTGCCACCTCTGCCAAA
* * * **
3971894 GACGTGACCAGTGGGTGCCGCCTCTTCCCTA
1 GGCGTGACCAGT-GGTGCCACCTCTGCCAAA
3971925 GGCGTGACC
1 GGCGTGACC
3971934 CATTGTGCTG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 10 0.31
31 22 0.69
ACGTcount: A:0.14, C:0.34, G:0.33, T:0.19
Consensus pattern (30 bp):
GGCGTGACCAGTGGTGCCACCTCTGCCAAA
Found at i:3975857 original size:29 final size:27
Alignment explanation
Indices: 3975808--3975880 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 27
3975798 TATTAAGATG
*
3975808 ATTATATGAAAA-TTTACAATAAATAGAAA
1 ATTATAT-AAAATTTTA-AAT-AATAAAAA
*
3975837 ATTATATAAAATTATTAAATATTAAAAA
1 ATTATATAAAATT-TTAAATAATAAAAA
*
3975865 ATAATATAAATATTTT
1 ATTATATAAA-ATTTT
3975881 TAAAATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 21 0.55
29 14 0.37
30 3 0.08
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (27 bp):
ATTATATAAAATTTTAAATAATAAAAA
Found at i:3975884 original size:29 final size:30
Alignment explanation
Indices: 3975834--3975902 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 30
3975824 CAATAAATAG
*
3975834 AAAATTATATAAAATTATT-AAATATT-AA
1 AAAATAATATAAAATTATTAAAATATTAAA
* *
3975862 AAAATAATATAAATATTTTTAAAATTTTAAA
1 AAAATAATATAAA-ATTATTAAAATATTAAA
3975893 AAAATAATAT
1 AAAATAATAT
3975903 GAATGAACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 12 0.34
29 5 0.14
30 6 0.17
31 12 0.34
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATAATATAAAATTATTAAAATATTAAA
Found at i:3978674 original size:23 final size:22
Alignment explanation
Indices: 3978648--3978691 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3978638 TTTAACTTTC
* *
3978648 TTTATATATTTTTTAGAATTTTT
1 TTTATAAATATTTT-GAATTTTT
3978671 TTTATAAATATTTTGAATTTT
1 TTTATAAATATTTTGAATTTT
3978692 AAAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTATAAATATTTTGAATTTTT
Found at i:3978676 original size:21 final size:20
Alignment explanation
Indices: 3978627--3978676 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
3978617 ATTCTAGAAA
*
3978627 TTTTTTA-ATTTTTTAACTT
1 TTTTTTATATTTTTTAAATT
*
3978646 TCTTTATATATTTTTTAGAATT
1 T-TTTTTATATTTTTTA-AATT
3978668 TTTTTTATA
1 TTTTTTATA
3978677 AATATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 5 0.20
21 15 0.60
22 4 0.16
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTTATATTTTTTAAATT
Found at i:3979347 original size:26 final size:26
Alignment explanation
Indices: 3979314--3979375 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
3979304 ATAAAAAATA
3979314 ATCAAAATATTATAATTTTTTTATTT
1 ATCAAAATATTATAATTTTTTTATTT
3979340 ATCAAAATATTATAATTTTTTTATTT
1 ATCAAAATATTATAATTTTTTTATTT
3979366 ATCAAAATAT
1 ATCAAAATAT
3979376 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (26 bp):
ATCAAAATATTATAATTTTTTTATTT
Found at i:3979673 original size:18 final size:18
Alignment explanation
Indices: 3979652--3979704 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
3979642 AGTAATAACT
*
3979652 CTATTTTAATTTAATAAA
1 CTATTCTAATTTAATAAA
*
3979670 CTATTCTCATTTAATAAA
1 CTATTCTAATTTAATAAA
3979688 --A-TCTAATTTAATAAA
1 CTATTCTAATTTAATAAA
3979703 CT
1 CT
3979705 CTATTTTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 13 0.43
16 1 0.03
18 16 0.53
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (18 bp):
CTATTCTAATTTAATAAA
Found at i:3979698 original size:15 final size:15
Alignment explanation
Indices: 3979658--3979707 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
3979648 AACTCTATTT
3979658 TAATTTAATAAACTATTC
1 TAATTTAATAAA--A-TC
*
3979676 TCATTTAATAAAATC
1 TAATTTAATAAAATC
*
3979691 TAATTTAATAAACTC
1 TAATTTAATAAAATC
3979706 TA
1 TA
3979708 TTTTGGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
18 11 0.38
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTTAATAAAATC
Found at i:3979756 original size:19 final size:18
Alignment explanation
Indices: 3979732--3979793 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
3979722 TGAGAATAGT
3979732 TTATTAAATTAAAATAAAG
1 TTATTAAATTAAAAT-AAG
* *
3979751 TTATTAAATGAGAAT-AG
1 TTATTAAATTAAAATAAG
3979768 TTTATTAAATTAAAATAGAG
1 -TTATTAAATTAAAATA-AG
3979788 TTATTA
1 TTATTA
3979794 CTTAATTAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 2 0.06
18 13 0.36
19 19 0.53
20 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
TTATTAAATTAAAATAAG
Found at i:3979771 original size:37 final size:37
Alignment explanation
Indices: 3979721--3979793 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
3979711 TGGTAATTTG
3979721 ATGAGAATAGTTTATTAAATTAAAATAAAGTTATTAA
1 ATGAGAATAGTTTATTAAATTAAAATAAAGTTATTAA
*
3979758 ATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
1 ATGAGAATAGTTTATTAAATTAAAATAAAGTTATTA
3979794 CTTAATTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.38
Consensus pattern (37 bp):
ATGAGAATAGTTTATTAAATTAAAATAAAGTTATTAA
Found at i:3979784 original size:18 final size:18
Alignment explanation
Indices: 3979726--3979785 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
3979716 ATTTGATGAG
3979726 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
* *
3979744 AATAAAG-TTATTAAATGAG
1 AAT--AGTTTATTAAATTAA
3979763 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
3979781 AATAG
1 AATAG
3979786 AGTTATTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 2 0.06
18 18 0.51
19 13 0.37
20 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (18 bp):
AATAGTTTATTAAATTAA
Found at i:3980411 original size:26 final size:27
Alignment explanation
Indices: 3980381--3980443 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
3980371 TTTTTTTGGT
3980381 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAACTTATA
*
3980407 ATATTTTGATAAATAAAAAAACTTATA
1 ATATTTTGGTAAATAAAAAAACTTATA
3980434 ATATTTTGGT
1 ATATTTTGGT
3980444 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAACTTATA
Found at i:3984029 original size:7 final size:7
Alignment explanation
Indices: 3984019--3984064 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
3984009 AAATGTGAAA
3984019 TAATAAT
1 TAATAAT
**
3984026 TAATCCT
1 TAATAAT
3984033 TAA--AT
1 TAATAAT
3984038 TAATAAT
1 TAATAAT
3984045 TAATAAT
1 TAATAAT
3984052 TAATAAT
1 TAATAAT
3984059 TAATAA
1 TAATAA
3984065 AAATCACCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.12
7 30 0.88
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (7 bp):
TAATAAT
Found at i:3992489 original size:10 final size:10
Alignment explanation
Indices: 3992447--3992493 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
3992437 ATTCTAGAAA
3992447 TTTTT-TAAT
1 TTTTTATAAT
3992456 TTTTT-TAACT
1 TTTTTATAA-T
3992466 TTCTTTATATAT
1 TT-TTTATA-AT
3992478 TTTTTATAAT
1 TTTTTATAAT
3992488 TTTTTA
1 TTTTTA
3992494 AAAAAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.24
10 11 0.32
11 9 0.26
12 5 0.15
13 1 0.03
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:3997892 original size:75 final size:75
Alignment explanation
Indices: 3997769--3997919 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
3997759 ACCCGATACA
3997769 TAGTATAGATAATTAAAAAACAAATTGGGTTGAGGTAAGATTAAACTCTGAATATATATAAAACC
1 TAGTATAGATAATTAAAAAACAAATTGGGTTGAGGTAAGATTAAACTCTGAATATATATAAAACC
3997834 CAATTCTTCT
66 CAATTCTTCT
3997844 TAGTATAGATAATTAAAAAACAAATTGGGTTGAGGTAAGATTAAACTCTGAATATATATAAAACC
1 TAGTATAGATAATTAAAAAACAAATTGGGTTGAGGTAAGATTAAACTCTGAATATATATAAAACC
3997909 CAATTCTTCT
66 CAATTCTTCT
3997919 T
1 T
3997920 CTTTTTTTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (75 bp):
TAGTATAGATAATTAAAAAACAAATTGGGTTGAGGTAAGATTAAACTCTGAATATATATAAAACC
CAATTCTTCT
Found at i:3998399 original size:22 final size:20
Alignment explanation
Indices: 3998355--3998402 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
3998345 TGTAACCAAC
* *
3998355 TTTTGTTTGTTTGTTTGTTT
1 TTTTGTTTGTGTGTTCGTTT
3998375 TTTTGTATTGTGTGCTTCGTTT
1 TTTTGT-TTGTGTG-TTCGTTT
3998397 TTTTGT
1 TTTTGT
3998403 GGTTAATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 12 0.50
ACGTcount: A:0.02, C:0.04, G:0.21, T:0.73
Consensus pattern (20 bp):
TTTTGTTTGTGTGTTCGTTT
Found at i:4000483 original size:60 final size:60
Alignment explanation
Indices: 4000418--4000535 Score: 227
Period size: 60 Copynumber: 2.0 Consensus size: 60
4000408 CAATAGTTGG
*
4000418 GATTTGTATAAATAGTGTGTTTCTCGAAGGTTAAGGTAATATTTAGTCCTTGAATTTGAA
1 GATTTGTATAAATAGTGTGTTTCTCGAAGGTTAAGGTAATACTTAGTCCTTGAATTTGAA
4000478 GATTTGTATAAATAGTGTGTTTCTCGAAGGTTAAGGTAATACTTAGTCCTTGAATTTG
1 GATTTGTATAAATAGTGTGTTTCTCGAAGGTTAAGGTAATACTTAGTCCTTGAATTTG
4000536 TTAGGGATCG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (60 bp):
GATTTGTATAAATAGTGTGTTTCTCGAAGGTTAAGGTAATACTTAGTCCTTGAATTTGAA
Found at i:4007688 original size:18 final size:20
Alignment explanation
Indices: 4007648--4007691 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4007638 ATTATAGAAA
*
4007648 TATATTTTATATATTCAAAT
1 TATATTTTATATATACAAAT
*
4007668 TATATTTTATA-A-ACAATT
1 TATATTTTATATATACAAAT
4007686 TATATT
1 TATATT
4007692 AATTTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTTTATATATACAAAT
Found at i:4014313 original size:16 final size:16
Alignment explanation
Indices: 4014292--4014322 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4014282 AGGTTAAAAG
4014292 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
4014308 CATATATATTTGAAA
1 CATATAAATTTGAAA
4014323 ACTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:4014494 original size:28 final size:29
Alignment explanation
Indices: 4014452--4014514 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
4014442 ATAAAATATA
* *
4014452 AATTTTGAAA-TTTTTTATAAATATTTTG-
1 AATTTTAAAAGTTTTTTA-AATTATTTTGT
*
4014480 AATTTTAAAAGTTTTTTAAATTTTTTTGT
1 AATTTTAAAAGTTTTTTAAATTATTTTGT
4014509 AATTTT
1 AATTTT
4014515 TGTTGAGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (29 bp):
AATTTTAAAAGTTTTTTAAATTATTTTGT
Found at i:4017261 original size:30 final size:30
Alignment explanation
Indices: 4017227--4017289 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
4017217 TTTTATTATG
4017227 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
4017257 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
4017287 CCA
1 CCA
4017290 TAAATATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:4017281 original size:15 final size:15
Alignment explanation
Indices: 4017233--4017283 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
4017223 TATGCCAATA
4017233 TTTGATACCCATATC
1 TTTGATACCCATATC
** *
4017248 TTTGACTTTCCA-ATA
1 TTTGA-TACCCATATC
4017263 TTTGATACCCATATC
1 TTTGATACCCATATC
4017278 TTTGAT
1 TTTGAT
4017284 TTTCCATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:4025647 original size:30 final size:29
Alignment explanation
Indices: 4025613--4025699 Score: 97
Period size: 28 Copynumber: 3.0 Consensus size: 29
4025603 CTCATCTATA
*
4025613 TTATTTTTTTAATTTTTTTAAATATTTATT
1 TTATTTTTTTAATTTTTTAAAAT-TTTATT
*
4025643 TTATTTTATTTTAA-TATTTAAAATTTTATT
1 TTA-TTT-TTTTAATTTTTTAAAATTTTATT
* *
4025673 ATATTTTTTT-ATTTATTAAAATTTTAT
1 TTATTTTTTTAATTTTTTAAAATTTTAT
4025700 ATAAAAACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.02
28 17 0.35
29 3 0.06
30 11 0.22
31 11 0.22
32 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (29 bp):
TTATTTTTTTAATTTTTTAAAATTTTATT
Found at i:4025807 original size:18 final size:18
Alignment explanation
Indices: 4025781--4025818 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4025771 TATGTTTTAT
*
4025781 AAATGACATAATATATTA
1 AAATAACATAATATATTA
*
4025799 AAATAACATAATATTTTA
1 AAATAACATAATATATTA
4025817 AA
1 AA
4025819 CTGGTCCGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATAACATAATATATTA
Found at i:4029533 original size:23 final size:21
Alignment explanation
Indices: 4029499--4029540 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
4029489 TTTGATATTT
*
4029499 TTAAAAAAATTAGAATAATTA
1 TTAAAAAAATTAAAATAATTA
4029520 TTAAGAAATAATTAAAATAAT
1 TTAA-AAA-AATTAAAATAAT
4029541 CAAAACAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 3 0.17
23 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
TTAAAAAAATTAAAATAATTA
Found at i:4037264 original size:24 final size:24
Alignment explanation
Indices: 4037236--4037287 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4037226 TTAGTAAGTC
* *
4037236 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
4037260 AAATATATTATACTTATAAATACT
1 AAATAAACTATACTAATAAATACT
4037284 AAAT
1 AAAT
4037288 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4038890 original size:804 final size:804
Alignment explanation
Indices: 4037342--4039756 Score: 4677
Period size: 804 Copynumber: 3.0 Consensus size: 804
4037332 ATCTCTTAGA
*
4037342 ATTTGGGTCACACAACTCTAACAATCTCCACCTTAACATGAATTTTTACAATTCCATCTTTGCCA
1 ATTTGGGTCACACAACTCTAACAATCTCCACCTTAACATGAATTCTTACAATTCCATCTTTGCCA
4037407 AAGCCCGCCATGGGCCTATCTTGAACTATGCAGGGAATTAACTAAGTCGAATATGTGCTTAGAAG
66 AAGCCCGCCATGGGCCTATCTTGAACTATGCAGGGAATTAACTAAGTCGAATATGTGCTTAGAAG
4037472 TCGGAAGACTTCTAGCCTTCAACTTGTGCACTACTAAATCAAAACTAACTCGGGTCTGATTTTCA
131 TCGGAAGACTTCTAGCCTTCAACTTGTGCACTACTAAATCAAAACTAACTCGGGTCTGATTTTCA
4037537 CGAACACAGTGCCCTAACTTTTCAAAACCTGCATCCAAAAGAGAATCCCTCTTCAACGAAAACGG
196 CGAACACAGTGCCCTAACTTTTCAAAACCTGCATCCAAAAGAGAATCCCTCTTCAACGAAAACGG
*
4037602 TCATACATTTTTCCCTCCTATGACCAAGTAGCCTCCGCTCCAAACGAGTTGATTTCGACTCCATA
261 TCATACATTTTTCCCTCCTATGACCAAGTAGCCTCCGCTCCAAACGAGTTGATTTCGACTCCGTA
*
4037667 ACGGATGAGGGACGTCCAATTTCATCGGTTACTATAGAACCTTTCAGAATATAAAGATTGCCAGT
326 ACGGATGAGGGACGTCCAATTTCATCGGTCACTATAGAACCTTTCAGAATATAAAGATTGCCAGT
*
4037732 TATGTTACCTTTTAACAAAACGAGAGCTCTACGAGATACTTTAATATCGCTCGACTCGATAGTGA
391 TATGTTACCTTTTAACAAAACGAGAGCTCTACGAGATACTTTAATATCGCTCGACTCGATATTGA
4037797 TTCCGCATCCTTTCAAGTCTAAAATACTCAAGGAGATGAGATTCTTTCGTAAATCAAGTACATAC
456 TTCCGCATCCTTTCAAGTCTAAAATACTCAAGGAGATGAGATTCTTTCGTAAATCAAGTACATAC
4037862 CTAACATCTGAGAGTGTCTTAATCATCCCATCGTGTATCCTAATTTTAACTGTATCAATACCAAT
521 CTAACATCTGAGAGTGTCTTAATCATCCCATCGTGTATCCTAATTTTAACTGTATCAATACCAAT
4037927 TACCTTACAAGATGAATCATTTCTCATGCGCACAACTCCACCTTCAACCGAACTGTATGTGGAGA
586 TACCTTACAAGATGAATCATTTCTCATGCGCACAACTCCACCTTCAACCGAACTGTATGTGGAGA
4037992 ACCGTTCTCTATTGGGACACATGTGGAAAGAACATCCTGAATCTAGGATCCATTCGGACGTGAGC
651 ACCGTTCTCTATTGGGACACATGTGGAAAGAACATCCTGAATCTAGGATCCATTCGGACGTGAGC
4038057 TTGGAGTTATCGCTCGTGACACTAACAAGAAATCATCAACGCTTTCATTCGACCAAATTAGCACC
716 TTGGAGTTATCGCTCGTGACACTAACAAGAAATCATCAACGCTTTCATTCGACCAAATTAGCACC
*
4038122 AGCAATGTAACACCCCTTACCCAC
781 AGCAATGTAACACCCCTTACCCGC
4038146 ATTTGGGTCACACAACTCTAACAATCTCCACCTTAACATGAATTCTTACAATTCCATCTTTGCCA
1 ATTTGGGTCACACAACTCTAACAATCTCCACCTTAACATGAATTCTTACAATTCCATCTTTGCCA
* *
4038211 AAGCCCGCCATGGACCTATCTTGAACTATGCAGGGAGTTAACTAAGTCGAATATGTGCTTAGAAG
66 AAGCCCGCCATGGGCCTATCTTGAACTATGCAGGGAATTAACTAAGTCGAATATGTGCTTAGAAG
4038276 TCGGAAGACTTCTAGCCTTCAACTTGTGCACTACTAAATCAAAACTAACTCGGGTCTGATTTTCA
131 TCGGAAGACTTCTAGCCTTCAACTTGTGCACTACTAAATCAAAACTAACTCGGGTCTGATTTTCA
*
4038341 CGAACACAGTGCCCTAACTTTTCAAAACCTGCATCCAAAAGAAAATCCCTCTTCAACGAAAACGG
196 CGAACACAGTGCCCTAACTTTTCAAAACCTGCATCCAAAAGAGAATCCCTCTTCAACGAAAACGG
*
4038406 TCATACATTTTTTCCTCCTATGACCAAGTAGCCTCCGCTCCAAACGAGTTGATTTCGACTCCGTA
261 TCATACATTTTTCCCTCCTATGACCAAGTAGCCTCCGCTCCAAACGAGTTGATTTCGACTCCGTA
4038471 ACGGATGAGGGACGTCCAATTTCATCGGTCACTATAGAACCTTTCAGAATATAAAGATTGCCAGT
326 ACGGATGAGGGACGTCCAATTTCATCGGTCACTATAGAACCTTTCAGAATATAAAGATTGCCAGT
4038536 TATGTTACCTTTTAACAAAACGAGAGCTCTACGAGATACTTTAATATCGCTCGACTCGATATTGA
391 TATGTTACCTTTTAACAAAACGAGAGCTCTACGAGATACTTTAATATCGCTCGACTCGATATTGA
4038601 TTCCGCATCCTTTCAAGTCTAAAATACTCAAGGAGATGAGATTCTTTCGTAAATCAAGTACATAC
456 TTCCGCATCCTTTCAAGTCTAAAATACTCAAGGAGATGAGATTCTTTCGTAAATCAAGTACATAC
4038666 CTAACATCTGAGAGTGTCTTAATCATCCCATCGTGTATCCTAATTTTAACTGTATCAATACCAAT
521 CTAACATCTGAGAGTGTCTTAATCATCCCATCGTGTATCCTAATTTTAACTGTATCAATACCAAT
*
4038731 TACCTTACAAGATGAATCATTTCTCATGCACACAACTCCACCTTCAACCGAACTGTATGTGGAGA
586 TACCTTACAAGATGAATCATTTCTCATGCGCACAACTCCACCTTCAACCGAACTGTATGTGGAGA
4038796 ACCGTTCTCTATTGGGACACATGTGGAAAGAACATCCTGAATCTAGGATCCATTCGGACGTGAGC
651 ACCGTTCTCTATTGGGACACATGTGGAAAGAACATCCTGAATCTAGGATCCATTCGGACGTGAGC
4038861 TTGGAGTTATCGCTCGTGACACTAACAAGAAATCATCAACGCTTTCATTCGACCAAATTAGCACC
716 TTGGAGTTATCGCTCGTGACACTAACAAGAAATCATCAACGCTTTCATTCGACCAAATTAGCACC
4038926 AGCAATGTAACACCCCTTACCCGC
781 AGCAATGTAACACCCCTTACCCGC
*
4038950 ATTTGGGTCACACAACTCTAACAATCTCTACCTTAACATGAATTCTTACAATTCCATCTTTGCCA
1 ATTTGGGTCACACAACTCTAACAATCTCCACCTTAACATGAATTCTTACAATTCCATCTTTGCCA
4039015 AAGCCCGCCATGGGCCTATCTTGAACTATGCAGGGAATTAACTAAGTCGAATATGTGCTTAGAAG
66 AAGCCCGCCATGGGCCTATCTTGAACTATGCAGGGAATTAACTAAGTCGAATATGTGCTTAGAAG
4039080 TCGGAAGACTTCTAGCCTTCAACTTGTGCACTACTAAATCAAAACTAACTCGGGTCTGATTTTCA
131 TCGGAAGACTTCTAGCCTTCAACTTGTGCACTACTAAATCAAAACTAACTCGGGTCTGATTTTCA
4039145 CGAACACAGTGCCCTAACTTTTCAAAACCTGCATCCAAAAGAGAATCCCTCTTCAACGAAAACGG
196 CGAACACAGTGCCCTAACTTTTCAAAACCTGCATCCAAAAGAGAATCCCTCTTCAACGAAAACGG
*
4039210 TCATACATTTTTCCCTCCTATGACCAATTAGCCTCCGCTCCAAACGAGTTGATTTCGACTCCGTA
261 TCATACATTTTTCCCTCCTATGACCAAGTAGCCTCCGCTCCAAACGAGTTGATTTCGACTCCGTA
*
4039275 ACGGATGAGGGACGTACAATTTCATCGGTCACTATAGAACCTTTCAGAATATAAAGATTGCCAGT
326 ACGGATGAGGGACGTCCAATTTCATCGGTCACTATAGAACCTTTCAGAATATAAAGATTGCCAGT
4039340 TATGTTACCTTTTAACAAAACGAGAGCTCTACGAGATACTTTAATATCGCTCGACTCGATATTGA
391 TATGTTACCTTTTAACAAAACGAGAGCTCTACGAGATACTTTAATATCGCTCGACTCGATATTGA
*
4039405 TTCCGCATCCTTTCAAGTCTAAAATACTCAAGAAGATGAGATTCTTTCGTAAATCAAGTACATAC
456 TTCCGCATCCTTTCAAGTCTAAAATACTCAAGGAGATGAGATTCTTTCGTAAATCAAGTACATAC
*
4039470 CTAACATCTGAGAGTGTTTTAATCATCCCATCGTGTATCCTAATTTTAACTGTATCAATACCAAT
521 CTAACATCTGAGAGTGTCTTAATCATCCCATCGTGTATCCTAATTTTAACTGTATCAATACCAAT
*
4039535 TACCTTACAAGATGAATCATTTCTCATGTGCACAACTCCACCTTCAACCGAACTGTATGTGGAGA
586 TACCTTACAAGATGAATCATTTCTCATGCGCACAACTCCACCTTCAACCGAACTGTATGTGGAGA
4039600 ACCGTTCTCTATTGGGACACATGTGGAAAGAACATCCTGAATCTAGGATCCATTCGGACGTGAGC
651 ACCGTTCTCTATTGGGACACATGTGGAAAGAACATCCTGAATCTAGGATCCATTCGGACGTGAGC
4039665 TTGGAGTTATCGCTCGTGACACTAACAAGAAATCATCAACGCTTTCATTCGACCAAATTAGCACC
716 TTGGAGTTATCGCTCGTGACACTAACAAGAAATCATCAACGCTTTCATTCGACCAAATTAGCACC
*
4039730 AGCTATGTAACACCCCTTACCCGC
781 AGCAATGTAACACCCCTTACCCGC
4039754 ATT
1 ATT
4039757 CCCGATCGGA
Statistics
Matches: 1589, Mismatches: 22, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
804 1589 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (804 bp):
ATTTGGGTCACACAACTCTAACAATCTCCACCTTAACATGAATTCTTACAATTCCATCTTTGCCA
AAGCCCGCCATGGGCCTATCTTGAACTATGCAGGGAATTAACTAAGTCGAATATGTGCTTAGAAG
TCGGAAGACTTCTAGCCTTCAACTTGTGCACTACTAAATCAAAACTAACTCGGGTCTGATTTTCA
CGAACACAGTGCCCTAACTTTTCAAAACCTGCATCCAAAAGAGAATCCCTCTTCAACGAAAACGG
TCATACATTTTTCCCTCCTATGACCAAGTAGCCTCCGCTCCAAACGAGTTGATTTCGACTCCGTA
ACGGATGAGGGACGTCCAATTTCATCGGTCACTATAGAACCTTTCAGAATATAAAGATTGCCAGT
TATGTTACCTTTTAACAAAACGAGAGCTCTACGAGATACTTTAATATCGCTCGACTCGATATTGA
TTCCGCATCCTTTCAAGTCTAAAATACTCAAGGAGATGAGATTCTTTCGTAAATCAAGTACATAC
CTAACATCTGAGAGTGTCTTAATCATCCCATCGTGTATCCTAATTTTAACTGTATCAATACCAAT
TACCTTACAAGATGAATCATTTCTCATGCGCACAACTCCACCTTCAACCGAACTGTATGTGGAGA
ACCGTTCTCTATTGGGACACATGTGGAAAGAACATCCTGAATCTAGGATCCATTCGGACGTGAGC
TTGGAGTTATCGCTCGTGACACTAACAAGAAATCATCAACGCTTTCATTCGACCAAATTAGCACC
AGCAATGTAACACCCCTTACCCGC
Found at i:4041193 original size:33 final size:34
Alignment explanation
Indices: 4041142--4041306 Score: 105
Period size: 33 Copynumber: 4.8 Consensus size: 34
4041132 TTCACATTTA
4041142 AAATACGGTGGAATCAGCACTTAGCAACCACCAAT
1 AAAT-CGGTGGAATCAGCACTTAGCAACCACCAAT
* *
4041177 AAATCGG-GGAATCAGCACATAGCAATC-CC--T
1 AAATCGGTGGAATCAGCACTTAGCAACCACCAAT
* *
4041207 ---T-GGAGGAATCAGCACTTAGCAACCCCCTTTCACATTT
1 AAATCGGTGGAATCAGCACTTAGCAA-CCAC---CA-A--T
*
4041244 AAAATACGGTGGAATCAACACTTAGCAACCACCAAT
1 -AAAT-CGGTGGAATCAGCACTTAGCAACCACCAAT
* **
4041280 GAATCGG-GGAATCAGCACACAGCAACC
1 AAATCGGTGGAATCAGCACTTAGCAACC
4041307 CCTTTATATG
Statistics
Matches: 102, Mismatches: 11, Indels: 36
0.68 0.07 0.24
Matches are distributed among these distances:
26 2 0.02
27 18 0.18
28 1 0.01
29 1 0.01
30 1 0.01
32 3 0.03
33 35 0.34
34 6 0.06
35 7 0.07
36 1 0.01
37 1 0.01
38 1 0.01
39 2 0.02
41 1 0.01
42 3 0.03
43 19 0.19
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (34 bp):
AAATCGGTGGAATCAGCACTTAGCAACCACCAAT
Found at i:4041193 original size:103 final size:103
Alignment explanation
Indices: 4040942--4041310 Score: 587
Period size: 103 Copynumber: 3.6 Consensus size: 103
4040932 TAACCGTTAT
* *
4040942 CGGTGGATTCCGCACTTAGCAACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* * *
4041007 GAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
* * * ** *
4041044 CGGTGGAATCAGCACTTGGCAACCACCAATTAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
4041109 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
* * *
4041147 CGGTGGAATCAGCACTTAGCAACCACCAATAAATCGGGGAATCAGCACATAGCAATCCCTTGGAG
1 CGGTGGAATCAGCACTTAGCAACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
4041212 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
* *
4041250 CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCTT
4041311 TATATGCAAT
Statistics
Matches: 244, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
102 79 0.32
103 165 0.68
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (103 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
Found at i:4044108 original size:81 final size:81
Alignment explanation
Indices: 4043957--4044108 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 81
4043947 AATTTTACTA
* * *
4043957 TATATTAATTTATAATTTCCTTATTTATAAGAGGAATGAATTGAAAGTTTTTCATTTTGAGGGGT
1 TATATTAATTTATAATTTCCTTATTTATAAGAAGAATAAATTGAAAGATTTTCATTTTGAGGGGT
*
4044022 CAAAGTGCAATTTTTC
66 AAAAGTGCAATTTTTC
* * * * *
4044038 TATATTAATTTATAGTTTCTTTGTTTATAATAAGACTAAATTGAAA-ATTTTCATTTTTG-GGGG
1 TATATTAATTTATAATTTCCTTATTTATAAGAAGAATAAATTGAAAGATTTTCA-TTTTGAGGGG
4044101 CTAAAAGT
65 -TAAAAGT
4044109 CTCTACCTGC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 10 0.17
81 50 0.83
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (81 bp):
TATATTAATTTATAATTTCCTTATTTATAAGAAGAATAAATTGAAAGATTTTCATTTTGAGGGGT
AAAAGTGCAATTTTTC
Found at i:4044391 original size:13 final size:13
Alignment explanation
Indices: 4044373--4044398 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4044363 AATATATATT
4044373 TCAAATTTTTATA
1 TCAAATTTTTATA
4044386 TCAAATTTTTATA
1 TCAAATTTTTATA
4044399 ATATAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TCAAATTTTTATA
Found at i:4048694 original size:24 final size:25
Alignment explanation
Indices: 4048653--4048699 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
4048643 AATTTAATTT
*
4048653 TTTTCTTTTTTTCCTTTA-TTTTCC
1 TTTTCTTTATTTCCTTTAGTTTTCC
4048677 TTTTC-TTATTTCCTTTTAGTTTT
1 TTTTCTTTATTTCC-TTTAGTTTT
4048700 AACAAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 9 0.45
25 4 0.20
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTCTTTATTTCCTTTAGTTTTCC
Found at i:4052580 original size:17 final size:17
Alignment explanation
Indices: 4052552--4052593 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 17
4052542 TTAAATTTTA
4052552 AAAAATTCAAAAAAAATT
1 AAAAATTC-AAAAAAATT
4052570 AAAAATT-AAAAAAATT
1 AAAAATTCAAAAAAATT
4052586 AAATAATT
1 AAA-AATT
4052594 GTTAATGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 4 0.17
18 7 0.30
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATTCAAAAAAATT
Found at i:4060314 original size:18 final size:18
Alignment explanation
Indices: 4060293--4060327 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4060283 TTTAATATCT
*
4060293 AAAATATAATTTATATTC
1 AAAAAATAATTTATATTC
4060311 AAAAAATAATTTATATT
1 AAAAAATAATTTATATT
4060328 AATTACTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAAATAATTTATATTC
Found at i:4060745 original size:6 final size:6
Alignment explanation
Indices: 4060712--4060736 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4060702 AATAAATATA
4060712 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
4060737 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:4060781 original size:32 final size:32
Alignment explanation
Indices: 4060735--4060795 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
4060725 ATTTTTATTT
*
4060735 TTTAATTTTAAAATACTTTTAAAATATTTTTA
1 TTTAATTTTAAAATAATTTTAAAATATTTTTA
* **
4060767 TTTATTTTTAAAATAATTTTTTAATATTT
1 TTTAATTTTAAAATAATTTTAAAATATTT
4060796 ATTAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (32 bp):
TTTAATTTTAAAATAATTTTAAAATATTTTTA
Found at i:4060794 original size:22 final size:22
Alignment explanation
Indices: 4060737--4060802 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
4060727 TTTTATTTTT
** *
4060737 TAATTTTAAAATACTTTTAAAA
1 TAATTTTTTAATATTTTTAAAA
*
4060759 T-A-TTTTTATTTATTTTTAAAA
1 TAATTTTTTA-ATATTTTTAAAA
4060780 TAATTTTTTAATATTTATTAAAA
1 TAATTTTTTAATATTT-TTAAAA
4060803 AATAGGCCGG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.11
21 12 0.34
22 7 0.20
23 12 0.34
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATTTTTTAATATTTTTAAAA
Found at i:4061121 original size:15 final size:16
Alignment explanation
Indices: 4061096--4061125 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4061086 AATTTTTAAA
4061096 AAATCATTAAAAAATC
1 AAATCATTAAAAAATC
4061112 AAAT-ATTAAAAAAT
1 AAATCATTAAAAAAT
4061126 ACTAAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATCATTAAAAAATC
Found at i:4061196 original size:17 final size:18
Alignment explanation
Indices: 4061170--4061212 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
4061160 TTATTAAAAA
*
4061170 AATAACATCTAATAAATT
1 AATAAAATCTAATAAATT
4061188 -ATAAAATCTAATAAATT
1 AATAAAATCTAATAAATT
4061205 AATAAAAT
1 AATAAAAT
4061213 AATCAGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAAATCTAATAAATT
Found at i:4061647 original size:19 final size:18
Alignment explanation
Indices: 4061625--4061667 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4061615 ATTTATAGCA
4061625 ATTTTAATATT-TTAATTAT
1 ATTTTAAT-TTATT-ATTAT
4061644 ATTTTAATTTATTATTAT
1 ATTTTAATTTATTATTAT
4061662 -TTTTAA
1 ATTTTAA
4061668 AGAATTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.26
18 7 0.30
19 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTAATTTATTATTAT
Found at i:4065781 original size:27 final size:27
Alignment explanation
Indices: 4065745--4065827 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
4065735 ATACAAAGTA
4065745 GTGGTGCCTATCTTAGAGGCGCCAATG
1 GTGGTGCCTATCTTAGAGGCGCCAATG
* * *
4065772 GTGGTGCCTATC-TGGCAGGCGCCATTA
1 GTGGTGCCTATCTTAG-AGGCGCCAATG
* * *
4065799 GTTGTGCC-ATGTTGAGAGGCGACAATG
1 GTGGTGCCTATCTT-AGAGGCGCCAATG
4065826 GT
1 GT
4065828 CTTATTTTCC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
26 4 0.09
27 39 0.89
28 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.27
Consensus pattern (27 bp):
GTGGTGCCTATCTTAGAGGCGCCAATG
Done.