Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 151 of 211
Found at i:47581402 original size:22 final size:23
Alignment explanation
Indices: 47581360--47581402 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
47581350 TATGAATTTA
*
47581360 ATAAAATTATAATATATAATACT
1 ATAAAATTATAATATAAAATACT
*
47581383 ATAAAA-TATAATTTAAAATA
1 ATAAAATTATAATATAAAATA
47581403 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAATTATAATATAAAATACT
Found at i:47581530 original size:41 final size:40
Alignment explanation
Indices: 47581365--47581540 Score: 132
Period size: 38 Copynumber: 4.3 Consensus size: 40
47581355 ATTTAATAAA
47581365 ATTATAATATATAATACTATAAAATATAATTTAAAATAATT
1 ATTATAA-ATATAATACTATAAAATATAATTTAAAATAATT
* *
47581406 ATTATTAAATATAATTTAATAGAAATATATAATTTAATAA-AATT
1 ATTA-TAAATATAA--TACTATAAA-ATATAATTTAA-AATAATT
* * * * * * *
47581450 CTTA-ATAT-TAAATATTCTTAAAT-GAATTTACTAA-AATT
1 ATTATAAATAT-AATACTATAAAATATAATTTA-AAATAATT
*
47581488 A-TA-ACATATAATACTATAAAATATAATTTAAAATAATT
1 ATTATAAATATAATACTATAAAATATAATTTAAAATAATT
47581526 ATTATTAAATATAAT
1 ATTA-TAAATATAAT
47581541 TTAATAAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
37 17 0.16
38 24 0.23
39 4 0.04
40 5 0.05
41 19 0.18
42 8 0.08
43 7 0.07
44 18 0.17
45 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (40 bp):
ATTATAAATATAATACTATAAAATATAATTTAAAATAATT
Found at i:47581553 original size:222 final size:221
Alignment explanation
Indices: 47581312--47581771 Score: 780
Period size: 222 Copynumber: 2.1 Consensus size: 221
47581302 TAATAAAAAT
* *
47581312 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATTATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATAT
*
47581377 AATACTATAAAATATAATTTAAAATAATTATTATT-AAATATAATTTAATAGAAATATATAATTT
66 AATACTATAAAATATAATTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTT
* *
47581441 AATAAAATTC-TTAATATTAAATATTCTTAAATGAATTTACTAAAATTATAACATATAATACTAT
131 AATAAAATCCTTTAATATTAAATATTCTT--A-GAATTTACTAAAATCATAACATATAATACTAT
47581505 AAAATATAATTTAAAATAATTATTATTAA
193 AAAATATAATTTAAAATAATTATTATTAA
*
47581534 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATAT
*
47581599 AATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATT
66 AATACTATAAAATATAATTTAAAATAATTATTATT-AAAATATAATTTAATAAAAATATATAATT
*
47581664 TAATAAAATCCTTTAATATTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTATAA
130 TAATAAAATCCTTTAATATTAAATATTCTTAGAATTTACTAAAATCATAACATATAATACTATAA
* *
47581729 AATATAATTTAAATTAATTATTTTTAA
195 AATATAATTTAAAATAATTATTATTAA
47581756 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
47581772 ATATATAATT
Statistics
Matches: 225, Mismatches: 10, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
222 170 0.76
223 1 0.00
224 36 0.16
225 18 0.08
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (221 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTT
AATAAAATCCTTTAATATTAAATATTCTTAGAATTTACTAAAATCATAACATATAATACTATAAA
ATATAATTTAAAATAATTATTATTAA
Found at i:47581653 original size:15 final size:16
Alignment explanation
Indices: 47581607--47581671 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
47581597 ATAATACTAT
47581607 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
47581622 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
47581635 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
47581652 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
47581669 AAA
1 AAA
47581672 TCCTTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:47581659 original size:18 final size:17
Alignment explanation
Indices: 47581634--47581671 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
47581624 AATTATTATT
*
47581634 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
47581651 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
47581669 AAA
1 AAA
47581672 TCCTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:47581775 original size:59 final size:59
Alignment explanation
Indices: 47581592--47581780 Score: 186
Period size: 59 Copynumber: 3.2 Consensus size: 59
47581582 CTAAAATCAT
* * *
47581592 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAA
1 AATATATAATACTATAAAATATAATTTAAATTAATTATT-TT-TAAATATAATTTAATAAA
* ** * * * * ** * *
47581653 AATATATAAT--T-TAATAAAATCCTTTAATATTAAATATTCTTAGAATTTACTAAAATCAT
1 AATATATAATACTATAA-AATATAATTTAA-ATTAATTATTTTTA-AATATAATTTAATAAA
47581712 AATATATAATACTATAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAAA
1 AATATATAATACTATAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAAA
47581771 AATATATAAT
1 AATATATAAT
47581781 TTAATCAAAT
Statistics
Matches: 97, Mismatches: 25, Indels: 14
0.71 0.18 0.10
Matches are distributed among these distances:
58 4 0.04
59 50 0.52
60 20 0.21
61 20 0.21
62 3 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (59 bp):
AATATATAATACTATAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAAA
Found at i:47584949 original size:28 final size:28
Alignment explanation
Indices: 47584914--47584984 Score: 142
Period size: 28 Copynumber: 2.5 Consensus size: 28
47584904 TAAAAGTTAT
47584914 TAAAAATCATAAAAATTGAAAATTTTTA
1 TAAAAATCATAAAAATTGAAAATTTTTA
47584942 TAAAAATCATAAAAATTGAAAATTTTTA
1 TAAAAATCATAAAAATTGAAAATTTTTA
47584970 TAAAAATCATAAAAA
1 TAAAAATCATAAAAA
47584985 ATTAAGAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (28 bp):
TAAAAATCATAAAAATTGAAAATTTTTA
Found at i:47585022 original size:49 final size:48
Alignment explanation
Indices: 47584960--47585084 Score: 123
Period size: 49 Copynumber: 2.6 Consensus size: 48
47584950 ATAAAAATTG
*
47584960 AAAATTTTTATAAAAATCATAAAAAATTA-AGAAATATGAAAAGAAATTAT
1 AAAA-TTTTATAAAAATCATAAAAAATTATA-AAAAATGAAAAGAAA-TAT
* * * *
47585010 AAAATTTTAT-AAAGTCGTAAGAAAATTATAAAAAATGTAAAGAAATCT
1 AAAATTTTATAAAAATCATAA-AAAATTATAAAAAATGAAAAGAAATAT
* *
47585058 AAAA-TTCATAAAAATTAT-AAAAATTAT
1 AAAATTTTATAAAAATCATAAAAAATTAT
47585085 TGTGTCCCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
46 8 0.13
47 5 0.08
48 19 0.30
49 26 0.41
50 5 0.08
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.30
Consensus pattern (48 bp):
AAAATTTTATAAAAATCATAAAAAATTATAAAAAATGAAAAGAAATAT
Found at i:47585616 original size:21 final size:21
Alignment explanation
Indices: 47585590--47585729 Score: 73
Period size: 21 Copynumber: 6.8 Consensus size: 21
47585580 TTACTATATG
47585590 TTTTATAAAATTTTTTACTAT
1 TTTTATAAAATTTTTTACTAT
*** *
47585611 TTTTATAAAA-AAATTACAAGT
1 TTTTATAAAATTTTTTACTA-T
* *
47585632 TCTTTAT-AAATTCTTTACAAT
1 T-TTTATAAAATTTTTTACTAT
*
47585653 ATTTTAT--ATTTTTTTA-TAT
1 -TTTTATAAAATTTTTTACTAT
*
47585672 TTTTAT--AATTTTTTTCTAT
1 TTTTATAAAATTTTTTACTAT
*
47585691 TTTTA-ATAAA-TTTTTAATAAT
1 TTTTATA-AAATTTTTTACT-AT
*
47585712 TTTCTATAAATTTTTTTA
1 TTT-TATAAAATTTTTTA
47585730 TAAAATTTTA
Statistics
Matches: 92, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
18 13 0.14
19 10 0.11
20 18 0.20
21 28 0.30
22 16 0.17
23 7 0.08
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTTATAAAATTTTTTACTAT
Found at i:47585685 original size:11 final size:10
Alignment explanation
Indices: 47585634--47585732 Score: 60
Period size: 10 Copynumber: 9.7 Consensus size: 10
47585624 TTACAAGTTC
*
47585634 TTTATAAATTC
1 TTTAT-AATTT
* *
47585645 TTTACAATAT
1 TTTATAATTT
*
47585655 TTTATATTTT
1 TTTATAATTT
47585665 TTTAT-A-TT
1 TTTATAATTT
47585673 TTTATAATTT
1 TTTATAATTT
*
47585683 TTT-TCTATTT
1 TTTAT-AATTT
*
47585693 TTAATAAATTT
1 TTTAT-AATTT
*
47585704 TTAATAATTT
1 TTTATAATTT
*
47585714 TCTATAAATTTT
1 TTTAT-AA-TTT
47585726 TTTATAA
1 TTTATAA
47585733 AATTTTAATA
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
8 7 0.10
9 2 0.03
10 34 0.50
11 18 0.26
12 7 0.10
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATTT
Found at i:47585733 original size:33 final size:33
Alignment explanation
Indices: 47585690--47585758 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
47585680 TTTTTTTCTA
*
47585690 TTTTTAATAAATTTTTAATAATTTTCTATAAAT
1 TTTTTAATAAAATTTTAATAATTTTCTATAAAT
* *
47585723 TTTTTTATAAAATTTTAATATTTTTCTATAAAT
1 TTTTTAATAAAATTTTAATAATTTTCTATAAAT
47585756 TTT
1 TTT
47585759 ATTGATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (33 bp):
TTTTTAATAAAATTTTAATAATTTTCTATAAAT
Found at i:47585755 original size:20 final size:21
Alignment explanation
Indices: 47585721--47585768 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
47585711 TTTTCTATAA
*
47585721 ATTTTTTTATAAAATTTTAAT
1 ATTTTTCTATAAAATTTTAAT
*
47585742 ATTTTTCTAT-AAATTTTATT
1 ATTTTTCTATAAAATTTTAAT
47585762 GATTTTT
1 -ATTTTT
47585769 ATTTTTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTTTTCTATAAAATTTTAAT
Found at i:47598676 original size:15 final size:15
Alignment explanation
Indices: 47598656--47598685 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47598646 ATGCTTTAAA
47598656 TCCATTCCCTCACTG
1 TCCATTCCCTCACTG
47598671 TCCATTCCCTCACTG
1 TCCATTCCCTCACTG
47598686 ATCCTTGTTC
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:0.13, C:0.47, G:0.07, T:0.33
Consensus pattern (15 bp):
TCCATTCCCTCACTG
Found at i:47599520 original size:31 final size:31
Alignment explanation
Indices: 47599484--47599546 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
47599474 GAGCTAGAAG
47599484 AATGGTGGAGGTCCAGTTAGGTGGGAAATTC
1 AATGGTGGAGGTCCAGTTAGGTGGGAAATTC
47599515 AATGGTGGAGGTCCAGTTAGGTGGGAAATTC
1 AATGGTGGAGGTCCAGTTAGGTGGGAAATTC
47599546 A
1 A
47599547 GGTGTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.38, T:0.25
Consensus pattern (31 bp):
AATGGTGGAGGTCCAGTTAGGTGGGAAATTC
Found at i:47610569 original size:134 final size:134
Alignment explanation
Indices: 47610329--47610597 Score: 511
Period size: 134 Copynumber: 2.0 Consensus size: 134
47610319 TTCATGACTT
*
47610329 AGGTTTTAATGGTCCTTCGTTTACTTGGCAAAGAGCAGGGACTTTTGAGCGTCTTGATCGTGCTT
1 AGGTTTTAATGGTCCTTCGTTTACTTGGCAAAGAGCAGGGACTGTTGAGCGTCTTGATCGTGCTT
47610394 TGGGGAATGAAGCGTGGGTTCAAGCCTTTTCGAATTGGATGGTTACTCGCCTTACTAGGCTTAAA
66 TGGGGAATGAAGCGTGGGTTCAAGCCTTTTCGAATTGGATGGTTACTCGCCTTACTAGGCTTAAA
47610459 TCGG
131 TCGG
*
47610463 AGGTTTTAATGGTCCTTCGTTTACTTGGCAAAGAGCGGGGACTGTTGAGCGTCTTGATCGTGCTT
1 AGGTTTTAATGGTCCTTCGTTTACTTGGCAAAGAGCAGGGACTGTTGAGCGTCTTGATCGTGCTT
*
47610528 TGGGGAATGAAGCGTGGGTTCAAGCCTTTTCGAATTGGATGGTTACTCGCTTTACTAGGCTTAAA
66 TGGGGAATGAAGCGTGGGTTCAAGCCTTTTCGAATTGGATGGTTACTCGCCTTACTAGGCTTAAA
47610593 TCGG
131 TCGG
47610597 A
1 A
47610598 TCACCAACCA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 132 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (134 bp):
AGGTTTTAATGGTCCTTCGTTTACTTGGCAAAGAGCAGGGACTGTTGAGCGTCTTGATCGTGCTT
TGGGGAATGAAGCGTGGGTTCAAGCCTTTTCGAATTGGATGGTTACTCGCCTTACTAGGCTTAAA
TCGG
Found at i:47611972 original size:17 final size:18
Alignment explanation
Indices: 47611950--47611983 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47611940 TAAATGAGTT
47611950 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
47611967 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
47611984 AAAAGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:47612340 original size:38 final size:37
Alignment explanation
Indices: 47612269--47612355 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 37
47612259 ATATGTGTGG
* *
47612269 AATTGAAATGAATATTGACTTGAAAATGGAAAAAGTGA
1 AATTGAATTGAATATTGACTTGAAAAT-GAAAAAATGA
* *
47612307 ATTTTGAATTGAAT-TATGA-TTGAAAGTGAAAAAATGA
1 A-ATTGAATTGAATAT-TGACTTGAAAATGAAAAAATGA
47612344 AATTGAATTGAA
1 AATTGAATTGAA
47612356 ATGTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
36 10 0.24
37 10 0.24
38 9 0.21
39 13 0.31
ACGTcount: A:0.48, C:0.01, G:0.20, T:0.31
Consensus pattern (37 bp):
AATTGAATTGAATATTGACTTGAAAATGAAAAAATGA
Found at i:47620813 original size:43 final size:43
Alignment explanation
Indices: 47620729--47620933 Score: 252
Period size: 43 Copynumber: 4.8 Consensus size: 43
47620719 TACTGTAACA
* * * * * *
47620729 ATGCC-ATATTCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
47620771 ATGCCAATAACCCAGCCATGGTCTTAGACGAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
47620814 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
47620857 ATGCCAATGTCCCAGACATGGTCTTACACGAAGTCTCATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
* * * *
47620900 ATGCC-ATATCTCAGATAAGGTCTTACACGTAATC
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATC
47620934 TCGGTAACCC
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 28 0.20
43 113 0.80
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:47623750 original size:48 final size:48
Alignment explanation
Indices: 47623693--47623784 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
47623683 TTTTAGATTA
*
47623693 ATTAATTTCAATAATGTA-ATTATTT-TTAAATAATTTATATATGTGATC
1 ATTAATTTC-ATAATCTATA-TATTTATTAAATAATTTATATATGTGATC
* **
47623741 ATTATTTTCATAATCTATATATTTATTTTATAATTTATATATGT
1 ATTAATTTCATAATCTATATATTTATTAAATAATTTATATATGT
47623785 ACACATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 12 0.32
48 26 0.68
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (48 bp):
ATTAATTTCATAATCTATATATTTATTAAATAATTTATATATGTGATC
Found at i:47623779 original size:20 final size:21
Alignment explanation
Indices: 47623742--47623782 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
47623732 TATGTGATCA
47623742 TTATTTTCATAATCTATATAT
1 TTATTTTCATAATCTATATAT
*
47623763 TTATTTT-ATAATTTATATAT
1 TTATTTTCATAATCTATATAT
47623783 GTACACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTTTCATAATCTATATAT
Found at i:47629931 original size:17 final size:18
Alignment explanation
Indices: 47629909--47629942 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47629899 TAAATGAGTT
47629909 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
47629926 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
47629943 AAAAGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:47630005 original size:25 final size:26
Alignment explanation
Indices: 47629955--47630005 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
47629945 AAGAAAATTC
* *
47629955 AATTAATTATGGTAAATTAGTGTTAT
1 AATTAATAATGGTAAATTAGTATTAT
*
47629981 AATTAATAAT-GTAAATTATTATTAT
1 AATTAATAATGGTAAATTAGTATTAT
47630006 TTTCGTAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (26 bp):
AATTAATAATGGTAAATTAGTATTAT
Found at i:47630292 original size:37 final size:36
Alignment explanation
Indices: 47630241--47630313 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
47630231 GAATATTAAC
* * * *
47630241 TTGAAAATGGAAAAGTTAATTTTGAATTGAATTGTGA
1 TTGAAAATGAAAAAGTGAA-ATTGAATTGAAATGTGA
*
47630278 TTGAAAGTGAAAAAGTGAAATTGAATTGAAATGTGA
1 TTGAAAATGAAAAAGTGAAATTGAATTGAAATGTGA
47630314 ATATGGAGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
36 15 0.48
37 16 0.52
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (36 bp):
TTGAAAATGAAAAAGTGAAATTGAATTGAAATGTGA
Found at i:47630504 original size:37 final size:38
Alignment explanation
Indices: 47630404--47630513 Score: 87
Period size: 37 Copynumber: 2.8 Consensus size: 38
47630394 AACCTCGAGT
* *
47630404 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGGTT
1 CGATGAGACACTGGGTGTCA--A-CTTTCTTCGGATAGGTC
** ** * **
47630445 CGATGAGGTACTGGGTACCAACTTTCTTCGGCTTTG-C
1 CGATGAGACACTGGGTGTCAACTTTCTTCGGATAGGTC
47630482 CGATGAGACACTGGGTGTCAACTATTGCTTCG
1 CGATGAGACACTGGGTGTCAACT-TT-CTTCG
47630514 AACTATCCGA
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.35
38 13 0.24
39 6 0.11
41 16 0.30
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTCTTCGGATAGGTC
Found at i:47632309 original size:42 final size:42
Alignment explanation
Indices: 47632259--47632358 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
47632249 CTATACGAAT
** *
47632259 GGCACTAAGTGTGCGAAATTAAAATGACGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACG
47632301 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACG
1 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACG
47632343 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
47632359 TACCAAGATC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACG
Found at i:47640666 original size:11 final size:10
Alignment explanation
Indices: 47640652--47640699 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 10
47640642 AAAAATCATT
47640652 AAAAATTTAA
1 AAAAATTTAA
47640662 AAAAA--TAA
1 AAAAATTTAA
*
47640670 AAAAATTTATT
1 AAAAATTTA-A
47640681 AAAAATTTAA
1 AAAAATTTAA
47640691 GAAAAATTT
1 -AAAAATTT
47640700 GGTTCAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
8 8 0.25
10 7 0.22
11 17 0.53
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:47640682 original size:21 final size:22
Alignment explanation
Indices: 47640658--47640699 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
47640648 CATTAAAAAT
47640658 TTAAAAAAATAA-AAAAATTTA
1 TTAAAAAAATAAGAAAAATTTA
**
47640679 TTAAAAATTTAAGAAAAATTT
1 TTAAAAAAATAAGAAAAATTT
47640700 GGTTCAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAAAATAAGAAAAATTTA
Found at i:47659004 original size:18 final size:18
Alignment explanation
Indices: 47658983--47659032 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47658973 TGAGAAAATC
*
47658983 AAAATATTGTGAG-AGTTA
1 AAAACATTGTGAGTA-TTA
*
47659001 AAAACATGGTGAGTATTA
1 AAAACATTGTGAGTATTA
*
47659019 AAAGCATTGTGAGT
1 AAAACATTGTGAGT
47659033 GAAAGAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.30
Consensus pattern (18 bp):
AAAACATTGTGAGTATTA
Found at i:47671900 original size:19 final size:19
Alignment explanation
Indices: 47671876--47671929 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
47671866 AAATTATAAA
* *
47671876 AATAAAAATTATTAACTTT
1 AATAAAAATTATAAAATTT
47671895 AATAAAAAATT-TAAAATTT
1 AAT-AAAAATTATAAAATTT
* *
47671914 ATTAAAAATTAGAAAA
1 AATAAAAATTATAAAA
47671930 AAATATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 15 0.52
20 7 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AATAAAAATTATAAAATTT
Found at i:47671939 original size:18 final size:19
Alignment explanation
Indices: 47671918--47671959 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
47671908 AAATTTATTA
*
47671918 AAAATTAG-AAAAAAATAT
1 AAAATTAGTAAAAAAATAC
*
47671936 AAAA-TCGTAAAAAAATAC
1 AAAATTAGTAAAAAAATAC
47671954 AAAATT
1 AAAATT
47671960 TTATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAATTAGTAAAAAAATAC
Found at i:47680580 original size:31 final size:31
Alignment explanation
Indices: 47680545--47680608 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
47680535 TTCACTTACT
47680545 TTACTTGTCACATCAACATCACATTCCACAA
1 TTACTTGTCACATCAACATCACATTCCACAA
47680576 TTACTTGTCACATCAACATCACATTCCACAA
1 TTACTTGTCACATCAACATCACATTCCACAA
47680607 TT
1 TT
47680609 CGACAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.31
Consensus pattern (31 bp):
TTACTTGTCACATCAACATCACATTCCACAA
Found at i:47684547 original size:41 final size:41
Alignment explanation
Indices: 47684502--47684599 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
47684492 CAACGGTACT
* *
47684502 TAGCCTGCTAGGCTTGTAGCCTGATTCAGATCACCGGCACG
1 TAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACG
*
47684543 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACG
1 TAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACG
*
47684584 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGGCTTA
47684600 AAGTCTGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (41 bp):
TAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACG
Found at i:47688708 original size:28 final size:28
Alignment explanation
Indices: 47688656--47688713 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
47688646 GTTCTCTCAA
*
47688656 AAATTAAAATTAAATTATATATTTTTAT
1 AAATTAAAATTAAATTATATATTTTAAT
47688684 AAATTAAAATATAAATTGAT-T-TTTTAAT
1 AAATTAAAAT-TAAATT-ATATATTTTAAT
47688712 AA
1 AA
47688714 CTTATATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 18 0.67
29 7 0.26
30 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
AAATTAAAATTAAATTATATATTTTAAT
Found at i:47689044 original size:24 final size:24
Alignment explanation
Indices: 47689017--47689067 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
47689007 AAACAATTTG
47689017 ATTATCATAATTTTCATTTTAAAA
1 ATTATCATAATTTTCATTTTAAAA
* * * *
47689041 ATTATTATGATTTTTATTTTAAGA
1 ATTATCATAATTTTCATTTTAAAA
47689065 ATT
1 ATT
47689068 CTCGGAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (24 bp):
ATTATCATAATTTTCATTTTAAAA
Found at i:47692795 original size:30 final size:29
Alignment explanation
Indices: 47692741--47692808 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
47692731 AGATTAGGAT
*
47692741 TAATTTAATTTTTCTTAAAATAAATAAAG
1 TAATTTAATTTTTATTAAAATAAATAAAG
* * *
47692770 TAATTTAGTTTTTATATAGAATAAATGAAG
1 TAATTTAATTTTTAT-TAAAATAAATAAAG
*
47692800 TAATATAAT
1 TAATTTAAT
47692809 ATTAAGATGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.44
Consensus pattern (29 bp):
TAATTTAATTTTTATTAAAATAAATAAAG
Found at i:47694626 original size:13 final size:13
Alignment explanation
Indices: 47694608--47694671 Score: 94
Period size: 13 Copynumber: 4.9 Consensus size: 13
47694598 AGTTTTTCAT
47694608 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
47694621 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
47694634 TG-TTATGGAAAAG
1 TGCTT-TTGAAAAG
*
47694647 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
47694660 TGCTTTTGAAAA
1 TGCTTTTGAAAA
47694672 ATTTGAGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
12 2 0.04
13 41 0.91
14 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:47696910 original size:72 final size:72
Alignment explanation
Indices: 47696718--47696884 Score: 230
Period size: 72 Copynumber: 2.3 Consensus size: 72
47696708 AAAATAATAT
* ** * *
47696718 ATAAACAACTATTGATAAAACTA-ATTTA-ATAAAAATAAGTAGAACATAAATTCAATATCTAAA
1 ATAAACAACTATTAATAAAACTAGA-TTACCCATAAATAAGTAGAACATAAATTCAATATCCAAA
*
47696781 GACCAAAC
65 AACCAAAC
*
47696789 ATAAACAACTATTAATAGAACTAGATTACCCATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTAATAAAACTAGATTACCCATAAATAAGTAGAACATAAATTCAATATCCAAAA
47696854 ACCAAAC
66 ACCAAAC
* *
47696861 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTAATAAAACTAG
47696885 TTTAGCATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
71 24 0.29
72 60 0.71
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTAATAAAACTAGATTACCCATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:47697334 original size:18 final size:18
Alignment explanation
Indices: 47697313--47697378 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
47697303 TCCATCAATT
*
47697313 TGAACATCATTTGAGATG
1 TGAACATCATTTGAAATG
47697331 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
47697349 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
47697367 TGAACATCATTT
1 TGAACATCATTT
47697379 CTCATATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:47699607 original size:21 final size:22
Alignment explanation
Indices: 47699563--47699603 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
47699553 TAATGAATAA
*
47699563 AAAATTATTAATTTTTTTGAAT
1 AAAATTATTAATTTTTTTAAAT
47699585 AAAA-TATT-ATTTTTTTAAA
1 AAAATTATTAATTTTTTTAAA
47699604 ATAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AAAATTATTAATTTTTTTAAAT
Found at i:47699710 original size:27 final size:27
Alignment explanation
Indices: 47699680--47699763 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
47699670 GTCTCATAAA
* * *
47699680 GAGGCACCATTAAAGGCGCCTTATAGG
1 GAGGCACCATTAAAAGTGCCTCATAGG
*
47699707 GAGGCACCATTAAAAGTGCCTCATAAG
1 GAGGCACCATTAAAAGTGCCTCATAGG
*
47699734 GAGGCGCCATTAAAAGTGCCTCATAGG
1 GAGGCACCATTAAAAGTGCCTCATAGG
47699761 GAG
1 GAG
47699764 AGGCGCCAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (27 bp):
GAGGCACCATTAAAAGTGCCTCATAGG
Found at i:47699825 original size:19 final size:19
Alignment explanation
Indices: 47699776--47700071 Score: 138
Period size: 19 Copynumber: 15.3 Consensus size: 19
47699766 GCGCCAATGG
*
47699776 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
47699795 GTAACTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
47699816 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
47699835 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
47699851 -TAATTTTGTATTTATAATTTT
1 GTAATTTTGTA--T-GAATATT
*
47699872 GGATTAGTATTTTGTATGAATAGT
1 -G--TA--ATTTTGTATGAATATT
47699896 GTAATTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
47699917 GTAATTTTTTATGAATATT
1 GTAATTTTGTATGAATATT
*
47699936 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
**
47699952 -TAATTTTGTATTTATAGTT
1 GTAATTTTGTATGAATA-TT
* * ** *
47699971 TTAGA-TTAGTAT-TTTGTAT
1 GTA-ATTTTGTATGAATAT-T
* *
47699990 G-AATATTG--T-AATTTT
1 GTAATTTTGTATGAATATT
47700005 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
47700024 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
47700047 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
47700066 GTAATT
1 GTAATT
47700072 ATTTTATAAT
Statistics
Matches: 217, Mismatches: 24, Indels: 72
0.69 0.08 0.23
Matches are distributed among these distances:
14 4 0.02
15 14 0.06
16 18 0.08
17 1 0.00
18 11 0.05
19 78 0.36
20 14 0.06
21 43 0.20
22 2 0.01
23 17 0.08
24 4 0.02
25 3 0.01
27 8 0.04
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:47699954 original size:101 final size:101
Alignment explanation
Indices: 47699779--47700052 Score: 395
Period size: 101 Copynumber: 2.6 Consensus size: 101
47699769 CCAATGGGTA
* * * *
47699779 ATTTTGTATGTATATTGTAACTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
*
47699844 TTATAATTAATTTTGTATTTATAATTTTGGATTAGT
66 TTATAATTAATTTTGTATTTATAATTTTAGATTAGT
*
47699880 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
*
47699945 TTATAATTAATTTTGTATTTATAGTTTTAGATTAGT
66 TTATAATTAATTTTGTATTTATAATTTTAGATTAGT
47699981 ATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
1 ATTTTGTATGAATATTGTAA---T-T--TTTTGTATGAATATTGT-A-ATT-TTT-TATGAATAT
47700046 TGTAATT
56 TGTAATT
47700053 TTGTATGAAT
Statistics
Matches: 155, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
101 113 0.73
104 1 0.01
105 1 0.01
107 17 0.11
108 1 0.01
109 3 0.02
110 3 0.02
111 16 0.10
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (101 bp):
ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
TTATAATTAATTTTGTATTTATAATTTTAGATTAGT
Found at i:47700011 original size:27 final size:27
Alignment explanation
Indices: 47699981--47700057 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
47699971 TTAGATTAGT
47699981 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
47700008 ATTTTGTATGAATATTGTAATATTG--
1 ATTTTGTATGAATATTGTAATTTTGTA
47700033 --TTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
47700058 TGAATATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 22 0.48
27 24 0.52
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (27 bp):
ATTTTGTATGAATATTGTAATTTTGTA
Found at i:47700053 original size:42 final size:41
Alignment explanation
Indices: 47699780--47700076 Score: 154
Period size: 42 Copynumber: 7.1 Consensus size: 41
47699770 CAATGGGTAA
* *
47699780 TTTTGTATGTATATTGTAACTTTTTGTATGAATA-T-T-ATAA
1 TTTTGTATGAATATTGTAA--TTTTGTATGAATATTGTAATAT
* **
47699820 TTTTGTATGAATATTGTAATTATTTTAT-AATTAATT-TTGTAT
1 TTTTGTATGAATATTGTAATT-TTGTATGAA-T-ATTGTAATAT
* * * *
47699862 TTATAAT-TTTGGAT-TAGT-ATTTTGTATGAATAGTGTAAT-T
1 TT-T--TGTATGAATATTGTAATTTTGTATGAATATTGTAATAT
*
47699902 TTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAA-TAT
* * * * * *
47699944 TTTAT-AATTAATTTTGT-ATTTATAGTTTTAGAT-TAGT-AT-T
1 TTT-TGTATGAATATTGTAATTT-T-GTATGA-ATATTGTAATAT
*
47699984 TTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATAT
1 TT-T-TG--TA-TG-AATATTGTAATTTTGTATGAATATTGTAATAT
47700031 TGTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTAT
1 T-TTTGTATGAATATTGTAATTTTGTATGAATATTGTAA-TAT
47700074 TTT
1 TTT
47700077 ATAATTAATT
Statistics
Matches: 197, Mismatches: 29, Indels: 60
0.69 0.10 0.21
Matches are distributed among these distances:
37 1 0.01
38 9 0.05
39 10 0.05
40 45 0.23
41 19 0.10
42 54 0.27
43 17 0.09
44 12 0.06
45 9 0.05
46 13 0.07
47 7 0.04
48 1 0.01
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.56
Consensus pattern (41 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATAT
Found at i:47700134 original size:60 final size:60
Alignment explanation
Indices: 47700064--47700185 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
47700054 TGTATGAATA
* * * * *
47700064 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
47700124 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
47700184 TT
1 TT
47700186 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 6 0.11
60 50 0.89
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:47704223 original size:21 final size:20
Alignment explanation
Indices: 47704189--47704227 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47704179 TTTAAATTTG
*
47704189 TTTAGAGGAAAAAATTAAAA
1 TTTAGAGAAAAAAATTAAAA
47704209 TTTAGGAGAAAAAAATTAA
1 TTTA-GAGAAAAAAATTAA
47704228 TTTATCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (20 bp):
TTTAGAGAAAAAAATTAAAA
Found at i:47704834 original size:24 final size:23
Alignment explanation
Indices: 47704783--47704834 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
47704773 AAAATAATTA
47704783 ATTTTTAAAATTATATTTGTTTT
1 ATTTTTAAAATTATATTTGTTTT
* *
47704806 -CTTTTAGGAATTAATATTT-TTTT
1 ATTTTTA-AAATT-ATATTTGTTTT
47704829 ATTTTT
1 ATTTTT
47704835 GTACAACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
22 5 0.22
23 8 0.35
24 10 0.43
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (23 bp):
ATTTTTAAAATTATATTTGTTTT
Found at i:47705691 original size:21 final size:21
Alignment explanation
Indices: 47705666--47705752 Score: 142
Period size: 21 Copynumber: 4.2 Consensus size: 21
47705656 TGGATTAGTA
47705666 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
*
47705687 TTTTGTATGTATATTGTAA--
1 TTTTGTATGAATATTGTAATT
47705706 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
47705727 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
47705748 ATTTT
1 -TTTT
47705753 ATAATTAATT
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.30
21 39 0.64
22 4 0.07
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:47705720 original size:40 final size:40
Alignment explanation
Indices: 47705665--47705747 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
47705655 TTGGATTAGT
*
47705665 ATTTTGTATGAATATTGTAATTTTTTGTATGTATATTGTA
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTA
47705705 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTA
47705745 ATT
1 ATT
47705748 ATTTTATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (40 bp):
ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTA
Found at i:47705809 original size:59 final size:60
Alignment explanation
Indices: 47705740--47705860 Score: 174
Period size: 59 Copynumber: 2.0 Consensus size: 60
47705730 TGTATGAATA
* * ***
47705740 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATT-TTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAACTATAAATTGTTGTGT
47705799 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAACTATAAATTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAACTATAAATTGTTGTGT
47705859 TT
1 TT
47705861 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 6 0.11
59 41 0.75
60 8 0.15
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAACTATAAATTGTTGTGT
Found at i:47705998 original size:16 final size:15
Alignment explanation
Indices: 47705977--47706011 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
47705967 CTCATTTAAT
47705977 TTTTATATAATGTAA
1 TTTTATATAATGTAA
47705992 CTTTTATATAATGTAA
1 -TTTTATATAATGTAA
47706008 TTTT
1 TTTT
47706012 GTTTGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTATATAATGTAA
Found at i:47707368 original size:27 final size:27
Alignment explanation
Indices: 47707338--47707394 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
47707328 CTCTCAACAT
* * *
47707338 GGCACCACTAATGGCGCCTCTCAGATA
1 GGCACCACCAATGCCGCCTCTAAGATA
* *
47707365 GGCATCACCATTGCCGCCTCTAAGATA
1 GGCACCACCAATGCCGCCTCTAAGATA
47707392 GGC
1 GGC
47707395 GTCACTACTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.19
Consensus pattern (27 bp):
GGCACCACCAATGCCGCCTCTAAGATA
Found at i:47707870 original size:18 final size:19
Alignment explanation
Indices: 47707847--47707884 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
47707837 ATATTCTTCA
*
47707847 TATATTATTAA-AAATATT
1 TATATTAGTAATAAATATT
47707865 TATATTAGTAATAAATATT
1 TATATTAGTAATAAATATT
47707884 T
1 T
47707885 TATAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TATATTAGTAATAAATATT
Found at i:47719113 original size:15 final size:15
Alignment explanation
Indices: 47719093--47719140 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
47719083 TTGATCTTTC
47719093 TAGTATTATATATTA
1 TAGTATTATATATTA
47719108 TAGTATTATATATTTTA
1 TAGTATTATATA--TTA
47719125 TAGTATTATATATTA
1 TAGTATTATATATTA
47719140 T
1 T
47719141 GATTTTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.52
17 15 0.48
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
TAGTATTATATATTA
Found at i:47719125 original size:17 final size:17
Alignment explanation
Indices: 47719093--47719138 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
47719083 TTGATCTTTC
47719093 TAGTATTATATA--TTA
1 TAGTATTATATATTTTA
47719108 TAGTATTATATATTTTA
1 TAGTATTATATATTTTA
47719125 TAGTATTATATATT
1 TAGTATTATATATT
47719139 ATGATTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.41
17 17 0.59
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
TAGTATTATATATTTTA
Found at i:47719181 original size:12 final size:13
Alignment explanation
Indices: 47719167--47719222 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 13
47719157 TATAAGAATA
47719167 TTTAATATTATATT
1 TTTAATATTATA-T
47719181 TTTAATAATTATTAT
1 TTTAAT-ATTA-TAT
47719196 TTTAA-ATTATAT
1 TTTAATATTATAT
47719208 TTTATAGTATTATAT
1 TTTA-A-TATTATAT
47719223 ATTATGATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 7 0.19
13 5 0.14
14 6 0.16
15 17 0.46
16 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TTTAATATTATAT
Found at i:47719191 original size:15 final size:15
Alignment explanation
Indices: 47719167--47719210 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
47719157 TATAAGAATA
47719167 TTTAAT-ATTATATT
1 TTTAATAATTATATT
47719181 TTTAATAATTAT-TAT
1 TTTAATAATTATAT-T
47719196 TTT-A-AATTATATT
1 TTTAATAATTATATT
47719209 TT
1 TT
47719211 ATAGTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 9 0.33
14 9 0.33
15 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTAATAATTATATT
Found at i:47719219 original size:28 final size:30
Alignment explanation
Indices: 47719167--47719225 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 30
47719157 TATAAGAATA
47719167 TTTAATATTATATTTTTAATAATTAT-TAT
1 TTTAATATTATATTTTTAATAATTATATAT
*
47719196 TTTAA-ATTATATTTTATAGT-ATTATATAT
1 TTTAATATTATATTTT-TAATAATTATATAT
47719225 T
1 T
47719226 ATGATTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTAATATTATATTTTTAATAATTATATAT
Found at i:47719281 original size:54 final size:54
Alignment explanation
Indices: 47719223--47719456 Score: 168
Period size: 56 Copynumber: 4.1 Consensus size: 54
47719213 AGTATTATAT
*
47719223 ATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATGATTTTATTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAA
* * * * **
47719277 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA-ATTATATTATATAGTATTAT
1 ATTAT-GA-TTTTATTAAATT-CA-TT--TAAGAA-TA-TTTAATATTA-A-GA-ATTTTATTA-
47719341 A
54 A
*
47719342 TATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 -ATTATGATTTTATTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAA
* * * * * * *
47719397 ATTATATATTTTTATTAAATTATATTTAATAATAATT-ATGTTAA-AATATGATTAA
1 ATTAT-GA-TTTTATTAAATT-CATTTAAGAATATTTAATATTAAGAATTTTATTAA
47719452 ATTAT
1 ATTAT
47719457 TTATTATTTA
Statistics
Matches: 141, Mismatches: 22, Indels: 33
0.72 0.11 0.17
Matches are distributed among these distances:
54 10 0.07
55 17 0.12
56 36 0.26
57 13 0.09
58 8 0.06
59 6 0.04
60 10 0.07
61 6 0.04
62 7 0.05
63 2 0.01
64 19 0.13
65 2 0.01
66 5 0.04
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (54 bp):
ATTATGATTTTATTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:47719281 original size:61 final size:61
Alignment explanation
Indices: 47719216--47719406 Score: 216
Period size: 57 Copynumber: 3.2 Consensus size: 61
47719206 ATTTTATAGT
*
47719216 ATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTATTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAA
* * * * *
47719277 A-T-TATA-TAT--TTTTATTAAATTATATTTAATAATAATT-ATTTTAA-ATTATATTATATAG
1 ATTATATATTATGATTTTATTAAATT-CATTTAAGAATATTTAATATTAAGA--ATTTTAT-TA-
*
47719335 T
61 A
*
47719336 ATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTATTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAA
47719397 ATTATATATT
1 ATTATATATT
47719407 TTTATTAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
55 1 0.01
56 17 0.16
57 18 0.17
58 5 0.05
59 5 0.05
60 2 0.02
61 15 0.14
62 5 0.05
63 17 0.16
64 18 0.17
65 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
ATTATATATTATGATTTTATTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:47719289 original size:18 final size:18
Alignment explanation
Indices: 47719268--47719421 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
47719258 ATATTAAGAA
47719268 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
47719286 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
47719301 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
47719316 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
47719335 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
47719350 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
47719369 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
47719388 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
47719406 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
47719422 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:47719300 original size:87 final size:87
Alignment explanation
Indices: 47719116--47719288 Score: 265
Period size: 87 Copynumber: 2.0 Consensus size: 87
47719106 TATAGTATTA
* * *
47719116 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTATATT
1 TATATATTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAGAAT
47719181 TTTAATAATTATTATTTTAAAT
66 TTTAATAATTATTATTTTAAAT
* *
47719203 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAA
1 TATATATTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT-AGAA
*
47719268 TTTTATTAAATTATATATTTT
65 TTTTAAT-AATTAT-TATTTT
47719289 TATTAAATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
87 59 0.75
88 8 0.10
89 6 0.08
90 6 0.08
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (87 bp):
TATATATTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAGAAT
TTTAATAATTATTATTTTAAAT
Found at i:47719318 original size:120 final size:120
Alignment explanation
Indices: 47719181--47719450 Score: 477
Period size: 120 Copynumber: 2.2 Consensus size: 120
47719171 ATATTATATT
* * *
47719181 TTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATT
1 TTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGATTTTAGTAAATTCATA
47719246 TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA
66 TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA
*
47719301 TTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGATTTTATTAAATTCATA
1 TTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGATTTTAGTAAATTCATA
47719366 TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA
66 TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA
* *
47719421 TTTAATAATAATTATGTTAAAATATGATTA
1 TTTAATAATAATTATTTTAAATTAT-ATTA
47719451 AATTATTTAT
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 139 0.97
121 4 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
TTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGATTTTAGTAAATTCATA
TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA
Found at i:47719361 original size:38 final size:38
Alignment explanation
Indices: 47719317--47719403 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
47719307 AATAATTATT
* * *
47719317 TTAAATTATATTATATAGTA-TTATATATTATG-ATTTTA
1 TTAAATTATATTA-AGAATATTTA-ATATTAAGAATTTTA
47719355 TTAAATTCATA-TAAGAATATTTAATATTAAGAATTTTA
1 TTAAATT-ATATTAAGAATATTTAATATTAAGAATTTTA
47719393 TTAAATTATAT
1 TTAAATTATAT
47719404 ATTTTTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
37 14 0.33
38 25 0.60
39 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (38 bp):
TTAAATTATATTAAGAATATTTAATATTAAGAATTTTA
Found at i:47719647 original size:45 final size:44
Alignment explanation
Indices: 47719564--47719659 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 44
47719554 ATTACAACAT
*
47719564 CATTCCATTCAACCAAACACAACAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAACAATACTATTACGCCTCTATTC
**
47719608 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-ACAA-TACTATTACGCCTCTATTC
*
47719653 TATTACA
1 CATTACA
47719660 GCTTTATTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.43
45 25 0.54
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAACAATACTATTACGCCTCTATTC
Found at i:47720554 original size:9 final size:9
Alignment explanation
Indices: 47720525--47720569 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
47720515 AATTAAGATA
*
47720525 TATAAATAT
1 TATAATTAT
47720534 TAT-ATGTA-
1 TATAAT-TAT
47720542 TATAATTAT
1 TATAATTAT
47720551 TATAATTAT
1 TATAATTAT
47720560 TATAATTAT
1 TATAATTAT
47720569 T
1 T
47720570 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:47720733 original size:4 final size:4
Alignment explanation
Indices: 47720724--47720751 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
47720714 AGTAAAAGAT
47720724 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
47720752 TATCATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:47721648 original size:3 final size:3
Alignment explanation
Indices: 47721634--47721668 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
47721624 GTGAGGTAAG
*
47721634 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
47721669 AGATGAGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:47733267 original size:26 final size:26
Alignment explanation
Indices: 47733229--47733289 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
47733219 TATTTAAGCA
*
47733229 TATATCACTACACATATAAATCCTAT
1 TATATCACAACACATATAAATCCTAT
47733255 TATATCACAACACATATAAATCCTAT
1 TATATCACAACACATATAAATCCTAT
47733281 T-TAATCACA
1 TAT-ATCACA
47733290 TTCAGTCACA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (26 bp):
TATATCACAACACATATAAATCCTAT
Found at i:47733741 original size:35 final size:36
Alignment explanation
Indices: 47733693--47733774 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
47733683 GTACATTATA
* *
47733693 TCACTATTACATGGTATGAA-AACATACCCACATAT
1 TCACTATCACATGGCATGAATAACATACCCACATAT
*
47733728 TTACTATCACATGGCATGAATAACATACCCACATAT
1 TCACTATCACATGGCATGAATAACATACCCACATAT
*
47733764 TCACTTTCACA
1 TCACTATCACA
47733775 ACAATCATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 17 0.41
36 24 0.59
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (36 bp):
TCACTATCACATGGCATGAATAACATACCCACATAT
Found at i:47736629 original size:23 final size:23
Alignment explanation
Indices: 47736582--47736653 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
47736572 AGAGCAGTAT
*
47736582 AGAATACGCCACACAAAGGCATTAC
1 AGAATACG-C-CACAAAGGCGTTAC
47736607 AGAATACGCCACAAAGGCGTTAC
1 AGAATACGCCACAAAGGCGTTAC
* * * * *
47736630 CGAGTACTCTACAAAGGTGTTAC
1 AGAATACGCCACAAAGGCGTTAC
47736653 A
1 A
47736654 AAATGTGACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 31 0.77
24 1 0.03
25 8 0.20
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (23 bp):
AGAATACGCCACAAAGGCGTTAC
Found at i:47741002 original size:101 final size:101
Alignment explanation
Indices: 47740825--47741085 Score: 504
Period size: 101 Copynumber: 2.6 Consensus size: 101
47740815 GGAATATACT
*
47740825 GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCAGTTACTCAGCCCAGCAGAC
1 GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGAC
47740890 TCCTAACTTATTATAATTTTTTCTTAAGAACACATC
66 TCCTAACTTATTATAATTTTTTCTTAAGAACACATC
47740926 GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGAC
1 GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGAC
*
47740991 TCCTAATTTATTATAATTTTTTCTTAAGAACACATC
66 TCCTAACTTATTATAATTTTTTCTTAAGAACACATC
47741027 GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCA
1 GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCA
47741086 ACATGTTCTT
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 158 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (101 bp):
GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAGCAGAC
TCCTAACTTATTATAATTTTTTCTTAAGAACACATC
Found at i:47741955 original size:19 final size:20
Alignment explanation
Indices: 47741915--47741959 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
47741905 ATTAATATCC
47741915 AAAT-AAGTAAAATAAAATA
1 AAATAAAGTAAAATAAAATA
47741934 AAATAAAGT-AAA-AAAATAA
1 AAATAAAGTAAAATAAAAT-A
47741953 AAATAAA
1 AAATAAA
47741960 AATTGAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.21
19 15 0.62
20 4 0.17
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (20 bp):
AAATAAAGTAAAATAAAATA
Found at i:47750015 original size:15 final size:15
Alignment explanation
Indices: 47749995--47750024 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47749985 TTGAGTGGAG
47749995 AGGTTTATTTTCTTT
1 AGGTTTATTTTCTTT
47750010 AGGTTTATTTTCTTT
1 AGGTTTATTTTCTTT
47750025 TCTGCTTAGG
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:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (15 bp):
AGGTTTATTTTCTTT
Found at i:47753561 original size:31 final size:29
Alignment explanation
Indices: 47753526--47753583 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
47753516 TTATTATAGA
47753526 AATTT-AATTTATTAATAAAATTAAAATAAGT
1 AATTTAAATTT-TT-ATAAAA-TAAAATAAGT
*
47753557 AATTTAAATTTTTTTAAAATAAAATAA
1 AATTTAAATTTTTATAAAATAAAATAA
47753584 TCTGGTGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 5 0.20
31 7 0.28
32 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
AATTTAAATTTTTATAAAATAAAATAAGT
Found at i:47756330 original size:49 final size:50
Alignment explanation
Indices: 47756238--47756335 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
47756228 ATCTATTTAT
* * * *
47756238 AGGTTGAAAAAACAATATTCTAATCAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACAATATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
**
47756288 AGGTTG-AAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAAACAATATTCTAATCAATGTAAAATAAAAGAAGTATAGT
47756336 TCTATATGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (50 bp):
AGGTTGAAAAAACAATATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:47772057 original size:21 final size:22
Alignment explanation
Indices: 47772026--47772066 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
47772016 TAAAATTCTA
47772026 CAATATTTTATAATTTTTTTTG
1 CAATATTTTATAATTTTTTTTG
47772048 CAAT-TTTTATAATTTTTTT
1 CAATATTTTATAATTTTTTT
47772067 CTAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
CAATATTTTATAATTTTTTTTG
Found at i:47772080 original size:21 final size:20
Alignment explanation
Indices: 47772026--47772076 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
47772016 TAAAATTCTA
47772026 CAATATTTTATAATTTTTTTT
1 CAAT-TTTTATAATTTTTTTT
47772047 GCAATTTTTATAA-TTTTTTT
1 -CAATTTTTATAATTTTTTTT
47772067 CTAATTTTTA
1 C-AATTTTTA
47772077 ATAAAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.04
20 15 0.54
21 8 0.29
22 4 0.14
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
CAATTTTTATAATTTTTTTT
Found at i:47772118 original size:28 final size:28
Alignment explanation
Indices: 47772057--47772162 Score: 74
Period size: 29 Copynumber: 3.8 Consensus size: 28
47772047 GCAATTTTTA
* * * *
47772057 TAATTTTTTTCTAATTTTTAATAAAACTT
1 TAATATTTTTATATTTTTTATTAAAA-TT
*
47772086 AAATATTTTTATATTTTTTATTAAAATT
1 TAATATTTTTATATTTTTTATTAAAATT
* * *
47772114 TAATA-ATTTATATGATTTTTATT-GATTT
1 TAATATTTTTATAT--TTTTTATTAAAATT
*
47772142 TTAT-TTTTTATAATTTTTTAT
1 TAATATTTTTAT-ATTTTTTAT
47772163 CACATGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
27 14 0.23
28 17 0.27
29 31 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TAATATTTTTATATTTTTTATTAAAATT
Found at i:47772529 original size:92 final size:89
Alignment explanation
Indices: 47772360--47772529 Score: 196
Period size: 92 Copynumber: 1.9 Consensus size: 89
47772350 GTCGTTTTAA
* * * * * *** *
47772360 TGCATTTTGAAAGTTCAAGTACCCAATTGAGTGTAAAAAAAAGCAGGGGCTTAATTGTTTTTTTT
1 TGCATTTTGAAAGTTAAAGTACCCAAGTAAGTATAAAAAAAAACAGGGGCTTAATTGCCCTATTT
****
47772425 TTTTAAGTTTGAGAGACTTTTTGG
66 GAAAAAGTTTGAGAGACTTTTTGG
47772449 TGCATTTTGAAAGTTAAAGTACCCAAGTAAGTATCCAAAAAAAAAACAGGGGCTTAATTGCCCTA
1 TGCATTTTGAAAGTTAAAGTACCCAAGTAAGTAT---AAAAAAAAACAGGGGCTTAATTGCCCTA
47772514 TTTGAAAAAGTTTGAG
63 TTTGAAAAAGTTTGAG
47772530 GGATATTTAC
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
89 30 0.46
92 35 0.54
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (89 bp):
TGCATTTTGAAAGTTAAAGTACCCAAGTAAGTATAAAAAAAAACAGGGGCTTAATTGCCCTATTT
GAAAAAGTTTGAGAGACTTTTTGG
Found at i:47772899 original size:3 final size:3
Alignment explanation
Indices: 47772891--47772916 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47772881 TTGACCAAGT
47772891 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
47772917 TAATTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:47773609 original size:16 final size:16
Alignment explanation
Indices: 47773588--47773621 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47773578 TCATAACGGT
47773588 TACCCCTCCCAACAGC
1 TACCCCTCCCAACAGC
*
47773604 TACCCCTCCCAACGGC
1 TACCCCTCCCAACAGC
47773620 TA
1 TA
47773622 TTTAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.53, G:0.09, T:0.15
Consensus pattern (16 bp):
TACCCCTCCCAACAGC
Found at i:47775240 original size:15 final size:15
Alignment explanation
Indices: 47775217--47775249 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47775207 CAATTCAAAT
47775217 ATACAATTGGTGTAA
1 ATACAATTGGTGTAA
*
47775232 ATACGATTGGTGTAA
1 ATACAATTGGTGTAA
47775247 ATA
1 ATA
47775250 TCGAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.33
Consensus pattern (15 bp):
ATACAATTGGTGTAA
Found at i:47775362 original size:17 final size:16
Alignment explanation
Indices: 47775342--47775389 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
47775332 AAAAAAAGAA
47775342 TAAACCCTATAAAACCC
1 TAAA-CCTATAAAACCC
*
47775359 TAAACC-ATAAAACAC
1 TAAACCTATAAAACCC
47775374 TAAAACCTATAAAACC
1 T-AAACCTATAAAACC
47775390 TTAATCCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 9 0.33
16 7 0.26
17 11 0.41
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (16 bp):
TAAACCTATAAAACCC
Found at i:47775370 original size:15 final size:17
Alignment explanation
Indices: 47775342--47775389 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
47775332 AAAAAAAGAA
*
47775342 TAAACCCTATAAAACCC
1 TAAAACCTATAAAACCC
*
47775359 T-AAACC-ATAAAACAC
1 TAAAACCTATAAAACCC
47775374 TAAAACCTATAAAACC
1 TAAAACCTATAAAACC
47775390 TTAATCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 9 0.35
16 9 0.35
17 8 0.31
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (17 bp):
TAAAACCTATAAAACCC
Found at i:47775398 original size:16 final size:16
Alignment explanation
Indices: 47775342--47775398 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
47775332 AAAAAAAGAA
*
47775342 TAAACCCTATAAAACCC
1 TAAA-CCTATAAAACCT
47775359 TAAACC-ATAAAACACT
1 TAAACCTATAAAAC-CT
*
47775375 AAAACCTATAAAACCT
1 TAAACCTATAAAACCT
*
47775391 TAATCCTA
1 TAAACCTA
47775399 ACCCCAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.21
16 16 0.47
17 11 0.32
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAACCTATAAAACCT
Found at i:47776033 original size:15 final size:15
Alignment explanation
Indices: 47775997--47776025 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47775987 TATAATTTTT
47775997 ATAATTTTTATAAAA
1 ATAATTTTTATAAAA
47776012 ATAATTTTT-TAAAA
1 ATAATTTTTATAAAA
47776026 TTAGATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAATTTTTATAAAA
Found at i:47776279 original size:26 final size:23
Alignment explanation
Indices: 47776237--47776296 Score: 59
Period size: 26 Copynumber: 2.5 Consensus size: 23
47776227 TTTGGTTCTC
*
47776237 GATTTTTATATTGATTTTGGAATAT
1 GATTTTTAGATTGATTTT--AATAT
47776262 AGATTTTTAGACTT-ATTTTAATAT
1 -GATTTTTAGA-TTGATTTTAATAT
*
47776286 GACTTTTAGAT
1 GATTTTTAGAT
47776297 ATTATTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 9 0.29
24 5 0.16
26 14 0.45
27 2 0.06
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (23 bp):
GATTTTTAGATTGATTTTAATAT
Found at i:47776301 original size:24 final size:24
Alignment explanation
Indices: 47776257--47776303 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47776247 TTGATTTTGG
* *
47776257 AATATAGATTTTTAGACTTATTTT
1 AATATAGACTTTTAGAATTATTTT
47776281 AATAT-GACTTTTAGATATTATTT
1 AATATAGACTTTTAGA-ATTATTT
47776304 GGTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (24 bp):
AATATAGACTTTTAGAATTATTTT
Found at i:47776586 original size:31 final size:30
Alignment explanation
Indices: 47776546--47776647 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 30
47776536 ATAGTAACAC
47776546 ATTTAATCCTCAATACTTATACATTCTATCA
1 ATTTAATCCTCAATACTTATA-ATTCTATCA
* * * * *
47776577 ATTTGATCCT-AATTCTAAATAATTCAATAA
1 ATTTAATCCTCAATACT-TATAATTCTATCA
* * * *
47776607 ATTTAACCCTCCACATTTATAGATTCTATCA
1 ATTTAATCCTCAATACTTATA-ATTCTATCA
*
47776638 ATTTGATCCT
1 ATTTAATCCT
47776648 TAGGCACATA
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
30 23 0.44
31 29 0.56
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (30 bp):
ATTTAATCCTCAATACTTATAATTCTATCA
Found at i:47777450 original size:20 final size:22
Alignment explanation
Indices: 47777413--47777452 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
47777403 ATATAAACAC
*
47777413 ATATAATATAATTTTTATAAAT
1 ATATAATATAATTATTATAAAT
47777435 ATATAA-ATAA-TATTATAA
1 ATATAATATAATTATTATAA
47777453 TGTGTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATAATATAATTATTATAAAT
Found at i:47781953 original size:49 final size:49
Alignment explanation
Indices: 47781844--47781953 Score: 114
Period size: 49 Copynumber: 2.2 Consensus size: 49
47781834 GAAACCATTG
* *** *
47781844 TTGTCGGACAACCCAGGGTGGTAGAATGTACATATGCTAGTAGTCATCG
1 TTGTCGGGCAACCCAGGGTAAAAGAATGTACATATGCTAGTAGTCATCA
* * * * *
47781893 TTG-CTGAGCAACCCAGGGTAAAAGTATGTACATGTTCTATTAGTCATCA
1 TTGTC-GGGCAACCCAGGGTAAAAGAATGTACATATGCTAGTAGTCATCA
47781942 TTGTCGGGCAAC
1 TTGTCGGGCAAC
47781954 TCGGGATGAC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
48 1 0.02
49 46 0.96
50 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (49 bp):
TTGTCGGGCAACCCAGGGTAAAAGAATGTACATATGCTAGTAGTCATCA
Found at i:47788066 original size:86 final size:86
Alignment explanation
Indices: 47787893--47788172 Score: 290
Period size: 86 Copynumber: 3.3 Consensus size: 86
47787883 AGCACTGTAA
* * * * * *
47787893 TGCATCATCAGATAAATCGAAGGAAATATAATGGCATACACAGTTCATCATCGGACAAGCCGAAA
1 TGCATCATCGGATAAACCGAAGAAAATATACTGGCATACACAGTGCATCATCGGACAAGTCGAAA
* * * *
47787958 CAATTGTACTGGCACGCGTAG
66 TAATTATACTGGCACACATAG
* * *
47787979 TGCATCATCGGATAAACCAAAGAAAATATACTGGTATACATAGTGCATCATCGGACAAGTCGAAA
1 TGCATCATCGGATAAACCGAAGAAAATATACTGGCATACACAGTGCATCATCGGACAAGTCGAAA
**
47788044 TAATTATACTAACACACATAG
66 TAATTATACTGGCACACATAG
* * * * ** * * ** * *
47788065 TGCATTATCGAAAAAATCGAATTAATTATACTAGCACCCACAGTGCATCATCGAACAAGTCGAAG
1 TGCATCATCGGATAAACCGAAGAAAATATACTGGCATACACAGTGCATCATCGGACAAGTCGAAA
* *
47788130 TAATTATACTGGCACACAGAC
66 TAATTATACTGGCACACATAG
*
47788151 TACATCATCGGATAAACCGAAG
1 TGCATCATCGGATAAACCGAAG
47788173 TATAACATGT
Statistics
Matches: 154, Mismatches: 40, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
86 154 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (86 bp):
TGCATCATCGGATAAACCGAAGAAAATATACTGGCATACACAGTGCATCATCGGACAAGTCGAAA
TAATTATACTGGCACACATAG
Found at i:47788172 original size:43 final size:43
Alignment explanation
Indices: 47787893--47788174 Score: 195
Period size: 43 Copynumber: 6.6 Consensus size: 43
47787883 AGCACTGTAA
* * * * * *
47787893 TGCATCATCAGATAAATCGAAGGAAATATAATGGCATACACAG
1 TGCATCATCGGACAAATCGAAGTAATTATACTGGCACACACAG
* ** ** * * **
47787936 TTCATCATCGGACAAGCCGAAACAATTGTACTGGCACGCGTAG
1 TGCATCATCGGACAAATCGAAGTAATTATACTGGCACACACAG
* * * * * * * *
47787979 TGCATCATCGGATAAACCAAAGAAAATATACTGGTATACATAG
1 TGCATCATCGGACAAATCGAAGTAATTATACTGGCACACACAG
* * ** *
47788022 TGCATCATCGGACAAGTCGAAATAATTATACTAACACACATAG
1 TGCATCATCGGACAAATCGAAGTAATTATACTGGCACACACAG
* * * * * *
47788065 TGCATTATCGAAAAAATCGAATTAATTATACTAGCACCCACAG
1 TGCATCATCGGACAAATCGAAGTAATTATACTGGCACACACAG
* * * *
47788108 TGCATCATCGAACAAGTCGAAGTAATTATACTGGCACACAGAC
1 TGCATCATCGGACAAATCGAAGTAATTATACTGGCACACACAG
* * *
47788151 TACATCATCGGATAAACCGAAGTA
1 TGCATCATCGGACAAATCGAAGTA
47788175 TAACATGTAC
Statistics
Matches: 181, Mismatches: 58, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
43 181 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (43 bp):
TGCATCATCGGACAAATCGAAGTAATTATACTGGCACACACAG
Found at i:47801414 original size:27 final size:27
Alignment explanation
Indices: 47801356--47801764 Score: 430
Period size: 27 Copynumber: 15.3 Consensus size: 27
47801346 TGGGGTCAAT
*
47801356 AAATGACTGAATTA-CCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* *
47801382 AAATGACCGAATTACCCTCACAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
**
47801409 AAATGACTAAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
** * *
47801436 AAATGATAGTATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
*
47801463 AAATGACCGTATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * * *
47801490 AAATAACCGTATTGCCCTCACAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * **
47801517 AAATGACCGTATTACTCCTATAGCCTA
1 AAATGACCGAATTACCCCCATAGGGTA
* *
47801544 AAATGATCGAATTACCCCCATAGGGTC
1 AAATGACCGAATTACCCCCATAGGGTA
** *
47801571 AAATGATTGAATTACCCTCC-CAGGGTA
1 AAATGACCGAATTACCC-CCATAGGGTA
* * * *
47801598 AAATGATCAAATTACCCCCACAAGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
*
47801625 AAATGACCGAATTACCCCTATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * *
47801652 AAATGATCGGATTA-CCCCACAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
** * *
47801678 AAATGACTAAATTA-CCCTATAGGGTG
1 AAATGACCGAATTACCCCCATAGGGTA
*
47801704 AAATGACTGAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
*
47801731 AAATGACCGAATTACCCCCATAGGATA
1 AAATGACCGAATTACCCCCATAGGGTA
47801758 AAATGAC
1 AAATGAC
47801765 TATTTTACCC
Statistics
Matches: 318, Mismatches: 61, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
26 57 0.18
27 259 0.81
28 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCATAGGGTA
Found at i:47801983 original size:26 final size:26
Alignment explanation
Indices: 47801930--47801984 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
47801920 TGGAGGAAGT
* *
47801930 ATACTGTTATTGACAGCTTTGTTACG
1 ATACTGTTACTGACAGCTTTGCTACG
* *
47801956 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGACAGCTTTGCTACG
47801982 ATA
1 ATA
47801985 TTGGTGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTGACAGCTTTGCTACG
Found at i:47802156 original size:33 final size:28
Alignment explanation
Indices: 47802094--47802151 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
47802084 GTATCGATAT
47802094 TGTATTGGGCTAAGGCCCACATTGTTAC
1 TGTATTGGGCTAAGGCCCACATTGTTAC
*
47802122 TGTATTGGGCTAAGGCCCACACTG-TAC
1 TGTATTGGGCTAAGGCCCACATTGTTAC
47802149 TGT
1 TGT
47802152 TACTGAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACATTGTTAC
Found at i:47802179 original size:33 final size:34
Alignment explanation
Indices: 47802116--47802184 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
47802106 AGGCCCACAT
* *
47802116 TGTTACTGTATTGGGCTAAGGCCCACACTG-TAC
1 TGTTACTGAATAGGGCTAAGGCCCACACTGTTAC
* * *
47802149 TGTTACTGAATAGGGCTCAGGCCTAGACTGTTAC
1 TGTTACTGAATAGGGCTAAGGCCCACACTGTTAC
47802183 TG
1 TG
47802185 CATGTTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (34 bp):
TGTTACTGAATAGGGCTAAGGCCCACACTGTTAC
Found at i:47816028 original size:31 final size:31
Alignment explanation
Indices: 47815987--47816048 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
47815977 AATGTGTTAG
47815987 TGAATGACATATTTGTAAATTAACATTCGAA
1 TGAATGACATATTTGTAAATTAACATTCGAA
*
47816018 TGAATTACATATTTGTAAATTAACATTCGAA
1 TGAATGACATATTTGTAAATTAACATTCGAA
47816049 GTTCGGTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (31 bp):
TGAATGACATATTTGTAAATTAACATTCGAA
Found at i:47820199 original size:28 final size:27
Alignment explanation
Indices: 47820166--47820263 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 27
47820156 TAATGAGATT
47820166 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
47820193 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
47820222 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
47820250 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
47820264 ATACTAATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 55 0.92
29 3 0.05
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:47821244 original size:25 final size:22
Alignment explanation
Indices: 47821188--47821399 Score: 169
Period size: 22 Copynumber: 9.1 Consensus size: 22
47821178 GTGTTATAAA
*
47821188 TTTAATGTATAATGCTGTCAAAT
1 TTTAATGTATAATGCTGTC-CAT
47821211 TTTAA-GTATATTGATGCTGTCCAT
1 TTTAATGTATA---ATGCTGTCCAT
47821235 TTTAATGTATAATGCTGTCCAAT
1 TTTAATGTATAATGCTGTCC-AT
* *
47821258 TTTGAGTATATAGATGCTGTCCAT
1 TTT-AATGTATA-ATGCTGTCCAT
47821282 TTTAATGTATAATGCTGTCCAAT
1 TTTAATGTATAATGCTGTCC-AT
47821305 TTTAA-GTATATTGATGCTGTCCAT
1 TTTAATGTATA---ATGCTGTCCAT
* * *
47821329 TCTAATGTATAAAGTTGTCCAAT
1 TTTAATGTATAATGCTGTCC-AT
* * *
47821352 TTTAA-GTATATTTAAGCTGTCTAA
1 TTTAATGTATA---ATGCTGTCCAT
**
47821376 TTCGATGTATAATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAT
47821398 TT
1 TT
47821400 AGAACATATT
Statistics
Matches: 155, Mismatches: 17, Indels: 35
0.75 0.08 0.17
Matches are distributed among these distances:
22 50 0.32
23 29 0.19
24 28 0.18
25 48 0.31
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (22 bp):
TTTAATGTATAATGCTGTCCAT
Found at i:47821259 original size:47 final size:47
Alignment explanation
Indices: 47821188--47821396 Score: 310
Period size: 47 Copynumber: 4.4 Consensus size: 47
47821178 GTGTTATAAA
*
47821188 TTTAATGTATAATGCTGTCAAATTTTAAGTATATTGATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAT
* *
47821235 TTTAATGTATAATGCTGTCCAATTTTGAGTATATAGATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAT
47821282 TTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAT
* * * * * * *
47821329 TCTAATGTATAAAGTTGTCCAATTTTAAGTATATTTAAGCTGTCTAA
1 TTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAT
**
47821376 TTCGATGTATAATGCTGTCCA
1 TTTAATGTATAATGCTGTCCA
47821397 TTTAGAACAT
Statistics
Matches: 145, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 145 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (47 bp):
TTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAT
Found at i:47821444 original size:141 final size:141
Alignment explanation
Indices: 47821190--47821444 Score: 325
Period size: 141 Copynumber: 1.8 Consensus size: 141
47821180 GTTATAAATT
* * * *
47821190 TAATGTATAATGCTGTCAAATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC
1 TAATGTATAAAGCTGTCAAATTTTAAGTATATTGAAGCTGTCCAATTCAATGTATAATGCTGTCC
* ** * *
47821255 AATTTTGAGTATATAGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTAAGTATATTGAT
66 AATTTAGAACATATAGATGCTGTCCAATTTAATGAATAATGCTGTCCAATTTTAAGTATATTGAT
47821320 GCTGTCCATTC
131 GCTGTCCATTC
* * * * *
47821331 TAATGTATAAAGTTGTCCAATTTTAAGTATATTTAAGCTGTCTAATTCGATGTATAATGCTGTCC
1 TAATGTATAAAGCTGTCAAATTTTAAGTATATTGAAGCTGTCCAATTCAATGTATAATGCTGTCC
* * *
47821396 -ATTTAGAACATATTA-TTGCTGTTCAATTTGATGAATAATTGCTGTCCAA
66 AATTTAGAACATA-TAGATGCTGTCCAATTTAATGAATAA-TGCTGTCCAA
47821445 AACAGGGTTG
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
140 27 0.28
141 68 0.72
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (141 bp):
TAATGTATAAAGCTGTCAAATTTTAAGTATATTGAAGCTGTCCAATTCAATGTATAATGCTGTCC
AATTTAGAACATATAGATGCTGTCCAATTTAATGAATAATGCTGTCCAATTTTAAGTATATTGAT
GCTGTCCATTC
Found at i:47824916 original size:3 final size:3
Alignment explanation
Indices: 47824908--47824935 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
47824898 ATGGCAAATC
47824908 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
47824936 GGTGAGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:47831897 original size:21 final size:21
Alignment explanation
Indices: 47831856--47831907 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
47831846 TATAGATACA
47831856 AATTTTATTTTTAGTCATATT
1 AATTTTATTTTTAGTCATATT
*
47831877 -ATTTTATTTTTTG-CACTTATT
1 AATTTTATTTTTAGTCA--TATT
47831898 AATTTTATTT
1 AATTTTATTT
47831908 CCGCTACTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 12 0.44
21 4 0.15
22 9 0.33
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (21 bp):
AATTTTATTTTTAGTCATATT
Found at i:47848973 original size:23 final size:23
Alignment explanation
Indices: 47848947--47849022 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
47848937 CACACGTGGT
* *
47848947 GCCTGAAATATGACACATAAAGA
1 GCCTGATATACGACACATAAAGA
47848970 GCCTGATATACGACACATAAAGTA
1 GCCTGATATACGACACATAAAG-A
*
47848994 -CCTGATATACGACACATAAAGT
1 GCCTGATATACGACACATAAAGA
47849016 GCCTGAT
1 GCCTGAT
47849023 CGGCAAGGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
23 47 0.98
24 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (23 bp):
GCCTGATATACGACACATAAAGA
Found at i:47848980 original size:46 final size:46
Alignment explanation
Indices: 47848930--47849022 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
47848920 ACCTGATTAG
*** * *
47848930 TATACGACACACGTGGTGCCTGAAATATGACACATAAAGAGCCTGA
1 TATACGACACACAAAGTACCTGAAATACGACACATAAAGAGCCTGA
* * *
47848976 TATACGACACATAAAGTACCTGATATACGACACATAAAGTGCCTGA
1 TATACGACACACAAAGTACCTGAAATACGACACATAAAGAGCCTGA
47849022 T
1 T
47849023 CGGCAAGGCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (46 bp):
TATACGACACACAAAGTACCTGAAATACGACACATAAAGAGCCTGA
Found at i:47850000 original size:14 final size:14
Alignment explanation
Indices: 47849977--47850006 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
47849967 CTTTAGTTTC
47849977 TTTTATTTACTTTA
1 TTTTATTTACTTTA
47849991 TTTTATTTACTTTA
1 TTTTATTTACTTTA
47850005 TT
1 TT
47850007 GTTTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTTACTTTA
Found at i:47853990 original size:17 final size:17
Alignment explanation
Indices: 47853959--47854001 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
47853949 ATTCCATCCA
47853959 TCCTT-CCCCTCCTTTCC
1 TCCTTCCCCCTCCTTT-C
*
47853976 TCCTTCCCCCT-CTTTT
1 TCCTTCCCCCTCCTTTC
47853992 TCCTTCCCCC
1 TCCTTCCCCC
47854002 AGTTTTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 10 0.42
17 9 0.38
18 5 0.21
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (17 bp):
TCCTTCCCCCTCCTTTC
Found at i:47853997 original size:16 final size:16
Alignment explanation
Indices: 47853976--47854018 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
47853966 CCTCCTTTCC
47853976 TCCTTCCCCCTCTTTT
1 TCCTTCCCCCTCTTTT
**
47853992 TCCTTCCCCCAGTTTT
1 TCCTTCCCCCTCTTTT
47854008 TCCTTCCCCCT
1 TCCTTCCCCCT
47854019 TACCGAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.02, C:0.51, G:0.02, T:0.44
Consensus pattern (16 bp):
TCCTTCCCCCTCTTTT
Found at i:47854207 original size:14 final size:14
Alignment explanation
Indices: 47854188--47854245 Score: 62
Period size: 15 Copynumber: 4.0 Consensus size: 14
47854178 TAATTAATTA
*
47854188 TTTATTTTTATTTT
1 TTTATTATTATTTT
*
47854202 TTTATTTTTATTTT
1 TTTATTATTATTTT
*
47854216 TCTAGTTATTATTTT
1 TTTA-TTATTATTTT
*
47854231 TAGTATTATTATTTT
1 T-TTATTATTATTTT
47854246 ATTTCGTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
14 17 0.44
15 20 0.51
16 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTATTATTATTTT
Found at i:47856374 original size:23 final size:21
Alignment explanation
Indices: 47856347--47856387 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
47856337 ATACACATAG
47856347 ATATATATAATTGCATATGTA
1 ATATATATAATTGCATATGTA
47856368 A-AT-TATAATTGCATATGTA
1 ATATATATAATTGCATATGTA
47856387 A
1 A
47856388 ATTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.85
20 2 0.10
21 1 0.05
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (21 bp):
ATATATATAATTGCATATGTA
Found at i:47856399 original size:23 final size:19
Alignment explanation
Indices: 47856352--47856391 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
47856342 CATAGATATA
47856352 TATAATTGCATATGTAAAT
1 TATAATTGCATATGTAAAT
47856371 TATAATTGCATATGTAAAT
1 TATAATTGCATATGTAAAT
47856390 TA
1 TA
47856392 ATTATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (19 bp):
TATAATTGCATATGTAAAT
Found at i:47856551 original size:4 final size:4
Alignment explanation
Indices: 47856539--47856585 Score: 60
Period size: 4 Copynumber: 11.5 Consensus size: 4
47856529 AAAGAAAGAA
*
47856539 AAAT AAAAT AAAT AAAT AAAT AAAT AAAT AAA- ACAT AAAT GAAAT AA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AA
47856586 GGATAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
3 2 0.05
4 28 0.74
5 8 0.21
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:47858134 original size:44 final size:43
Alignment explanation
Indices: 47858075--47858192 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 43
47858065 GATGCGATCT
* *
47858075 GCTCTACTGCAACTTCAGAGAGATAAGATCTATT-ACTTTAATCC
1 GCTCCACTACAACTTCAG-GAGATAAGAT-TATTGACTTTAATCC
* *
47858119 GCTCCACTACAACTTCAGGGAGATAGGATTATTGACTTTAATCT
1 GCTCCACTACAACTTCA-GGAGATAAGATTATTGACTTTAATCC
*
47858163 GCTCCACTACAACCTCAGGAAGATAAGATT
1 GCTCCACTACAACTTCAGG-AGATAAGATT
47858193 TGCTTCTTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 6 0.09
44 58 0.89
45 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
GCTCCACTACAACTTCAGGAGATAAGATTATTGACTTTAATCC
Found at i:47858476 original size:87 final size:87
Alignment explanation
Indices: 47858354--47858859 Score: 814
Period size: 87 Copynumber: 5.8 Consensus size: 87
47858344 GCTAGTGCTT
*
47858354 AGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
47858419 CGATCTGCTTAGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAATGC
* * *
47858441 AGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
47858506 TGATCTGCTTCGCTGTTAATGT
66 CGATCTGCTTCGCTGTTAATGC
* *
47858528 AGGAAGACAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
47858593 CGATCTTCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAATGC
* *
47858615 AGGAAGGCGAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
47858680 CGATCTGCTTCGCTGTTAATGT
66 CGATCTGCTTCGCTGTTAATGC
* * *
47858702 AGGAAGGCGAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * *
47858767 CAATCTACTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAATGC
*
47858789 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCAGTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
47858854 TGATCT
66 CGATCT
47858860 TCACTGATCT
Statistics
Matches: 384, Mismatches: 35, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 384 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAATGC
Found at i:47860520 original size:17 final size:18
Alignment explanation
Indices: 47860498--47860534 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
47860488 TTGACTTTGA
47860498 TTGATTTCTCT-TTTTCT
1 TTGATTTCTCTCTTTTCT
*
47860515 TTGATTTTTCTCTTTTCT
1 TTGATTTCTCTCTTTTCT
47860533 TT
1 TT
47860535 CTTTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.73
Consensus pattern (18 bp):
TTGATTTCTCTCTTTTCT
Found at i:47860526 original size:19 final size:19
Alignment explanation
Indices: 47860492--47860534 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 19
47860482 TTTATTTTGA
47860492 CTTTGATTGATTTCTCTTTTT
1 CTTTGATT-ATTTCTC-TTTT
47860513 CTTTGATT-TTTCTCTTTT
1 CTTTGATTATTTCTCTTTT
47860531 CTTT
1 CTTT
47860535 CTTTGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 6 0.27
21 8 0.36
ACGTcount: A:0.07, C:0.16, G:0.07, T:0.70
Consensus pattern (19 bp):
CTTTGATTATTTCTCTTTT
Found at i:47860552 original size:22 final size:22
Alignment explanation
Indices: 47860510--47860552 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
47860500 GATTTCTCTT
*
47860510 TTTCTTTGATTTTTCTCTTTTC
1 TTTCTTTGATTTTTCTATTTTC
* *
47860532 TTTCTTTGTTTTTTTTATTTT
1 TTTCTTTGATTTTTCTATTTT
47860553 TATTTTGCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTCTTTGATTTTTCTATTTTC
Found at i:47860569 original size:18 final size:17
Alignment explanation
Indices: 47860543--47860576 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47860533 TTCTTTGTTT
*
47860543 TTTTTATTTTTATTTTGC
1 TTTTGATTTTT-TTTTGC
47860561 TTTTGATTTTTTTTTG
1 TTTTGATTTTTTTTTG
47860577 AATCTGAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTGATTTTTTTTTGC
Done.